-- dump date 20140619_045518 -- class Genbank::misc_feature -- table misc_feature_note -- id note 212717000001 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 212717000002 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 212717000003 Walker A motif; other site 212717000004 ATP binding site [chemical binding]; other site 212717000005 Walker B motif; other site 212717000006 arginine finger; other site 212717000007 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 212717000008 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 212717000009 Walker A motif; other site 212717000010 ATP binding site [chemical binding]; other site 212717000011 Walker B motif; other site 212717000012 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 212717000013 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 212717000014 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 212717000015 putative active site [active] 212717000016 catalytic site [active] 212717000017 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 212717000018 putative active site [active] 212717000019 catalytic site [active] 212717000020 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 212717000021 active site 212717000022 Fe-S cluster binding site [ion binding]; other site 212717000023 Domain of unknown function (DUF4324); Region: DUF4324; pfam14212 212717000024 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 212717000025 flavodoxin; Provisional; Region: PRK06242 212717000026 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 212717000027 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 212717000028 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 212717000029 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 212717000030 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 212717000031 putative NADH binding site [chemical binding]; other site 212717000032 putative active site [active] 212717000033 nudix motif; other site 212717000034 putative metal binding site [ion binding]; other site 212717000035 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 212717000036 diaminopropionate ammonia-lyase; Region: 2_3_DAP_am_ly; TIGR03528 212717000037 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 212717000038 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 212717000039 catalytic residue [active] 212717000040 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 212717000041 GAF domain; Region: GAF; cl17456 212717000042 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 212717000043 Walker A motif; other site 212717000044 ATP binding site [chemical binding]; other site 212717000045 Walker B motif; other site 212717000046 arginine finger; other site 212717000047 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 212717000048 recombination protein RecR; Reviewed; Region: recR; PRK00076 212717000049 RecR protein; Region: RecR; pfam02132 212717000050 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 212717000051 putative active site [active] 212717000052 putative metal-binding site [ion binding]; other site 212717000053 tetramer interface [polypeptide binding]; other site 212717000054 hypothetical protein; Validated; Region: PRK00153 212717000055 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 212717000056 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 212717000057 Walker A motif; other site 212717000058 ATP binding site [chemical binding]; other site 212717000059 Walker B motif; other site 212717000060 arginine finger; other site 212717000061 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 212717000062 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 212717000063 nucleoside/Zn binding site; other site 212717000064 dimer interface [polypeptide binding]; other site 212717000065 catalytic motif [active] 212717000066 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 212717000067 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 212717000068 phosphatidylserine decarboxylase; Provisional; Region: PRK00723 212717000069 seryl-tRNA synthetase; Provisional; Region: PRK05431 212717000070 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 212717000071 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 212717000072 dimer interface [polypeptide binding]; other site 212717000073 active site 212717000074 motif 1; other site 212717000075 motif 2; other site 212717000076 motif 3; other site 212717000077 Protein of unknown function (DUF1667); Region: DUF1667; pfam07892 212717000078 Predicted dehydrogenase [General function prediction only]; Region: COG0579 212717000079 hydroxyglutarate oxidase; Provisional; Region: PRK11728 212717000080 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 212717000081 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717000082 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 212717000083 dimer interface [polypeptide binding]; other site 212717000084 phosphorylation site [posttranslational modification] 212717000085 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 212717000086 ATP binding site [chemical binding]; other site 212717000087 Mg2+ binding site [ion binding]; other site 212717000088 G-X-G motif; other site 212717000089 Response regulator receiver domain; Region: Response_reg; pfam00072 212717000090 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 212717000091 active site 212717000092 phosphorylation site [posttranslational modification] 212717000093 intermolecular recognition site; other site 212717000094 dimerization interface [polypeptide binding]; other site 212717000095 hypothetical protein; Validated; Region: PRK00068 212717000096 Uncharacterized conserved protein [Function unknown]; Region: COG1615 212717000097 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 212717000098 HTH domain; Region: HTH_11; pfam08279 212717000099 3H domain; Region: 3H; pfam02829 212717000100 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 212717000101 Domain of unknown function (DUF4324); Region: DUF4324; pfam14212 212717000102 DNA gyrase subunit A; Validated; Region: PRK05560 212717000103 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 212717000104 CAP-like domain; other site 212717000105 active site 212717000106 primary dimer interface [polypeptide binding]; other site 212717000107 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 212717000108 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 212717000109 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 212717000110 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 212717000111 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 212717000112 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 212717000113 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 212717000114 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 212717000115 Mg2+ binding site [ion binding]; other site 212717000116 G-X-G motif; other site 212717000117 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 212717000118 anchoring element; other site 212717000119 dimer interface [polypeptide binding]; other site 212717000120 ATP binding site [chemical binding]; other site 212717000121 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 212717000122 active site 212717000123 putative metal-binding site [ion binding]; other site 212717000124 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 212717000125 recombination protein F; Reviewed; Region: recF; PRK00064 212717000126 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 212717000127 Walker A/P-loop; other site 212717000128 ATP binding site [chemical binding]; other site 212717000129 Q-loop/lid; other site 212717000130 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717000131 ABC transporter signature motif; other site 212717000132 Walker B; other site 212717000133 D-loop; other site 212717000134 H-loop/switch region; other site 212717000135 DNA polymerase III subunit beta; Validated; Region: PRK05643 212717000136 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 212717000137 putative DNA binding surface [nucleotide binding]; other site 212717000138 dimer interface [polypeptide binding]; other site 212717000139 beta-clamp/clamp loader binding surface; other site 212717000140 beta-clamp/translesion DNA polymerase binding surface; other site 212717000141 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 212717000142 DnaA N-terminal domain; Region: DnaA_N; pfam11638 212717000143 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 212717000144 Walker A motif; other site 212717000145 ATP binding site [chemical binding]; other site 212717000146 Walker B motif; other site 212717000147 arginine finger; other site 212717000148 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 212717000149 DnaA box-binding interface [nucleotide binding]; other site 212717000150 putative inner membrane protein translocase component YidC; Provisional; Region: PRK00145 212717000151 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 212717000152 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 212717000153 G-X-X-G motif; other site 212717000154 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 212717000155 RxxxH motif; other site 212717000156 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 212717000157 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 212717000158 trmE is a tRNA modification GTPase; Region: trmE; cd04164 212717000159 G1 box; other site 212717000160 GTP/Mg2+ binding site [chemical binding]; other site 212717000161 Switch I region; other site 212717000162 G2 box; other site 212717000163 Switch II region; other site 212717000164 G3 box; other site 212717000165 G4 box; other site 212717000166 G5 box; other site 212717000167 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 212717000168 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 212717000169 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 212717000170 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 212717000171 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 212717000172 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 212717000173 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 212717000174 ParB-like nuclease domain; Region: ParBc; pfam02195 212717000175 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 212717000176 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 212717000177 P-loop; other site 212717000178 Magnesium ion binding site [ion binding]; other site 212717000179 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 212717000180 Magnesium ion binding site [ion binding]; other site 212717000181 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 212717000182 ParB-like nuclease domain; Region: ParB; smart00470 212717000183 putative sporulation protein YyaC; Region: spore_YyaC; TIGR02841 212717000184 sporulation integral membrane protein YtvI; Region: spore_ytvI; TIGR02872 212717000185 Domain of unknown function DUF20; Region: UPF0118; pfam01594 212717000186 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 212717000187 Mechanosensitive ion channel; Region: MS_channel; pfam00924 212717000188 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 212717000189 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 212717000190 dimer interface [polypeptide binding]; other site 212717000191 ssDNA binding site [nucleotide binding]; other site 212717000192 tetramer (dimer of dimers) interface [polypeptide binding]; other site 212717000193 MazG-like family; Region: MazG-like; pfam12643 212717000194 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 212717000195 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 212717000196 DHH family; Region: DHH; pfam01368 212717000197 DHHA1 domain; Region: DHHA1; pfam02272 212717000198 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 212717000199 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 212717000200 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 212717000201 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 212717000202 Walker A motif; other site 212717000203 ATP binding site [chemical binding]; other site 212717000204 Walker B motif; other site 212717000205 arginine finger; other site 212717000206 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 212717000207 replicative DNA helicase; Provisional; Region: PRK05595 212717000208 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 212717000209 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 212717000210 Walker A motif; other site 212717000211 ATP binding site [chemical binding]; other site 212717000212 Walker B motif; other site 212717000213 DNA binding loops [nucleotide binding] 212717000214 Bacterial SH3 domain; Region: SH3_3; cl17532 212717000215 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 212717000216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 212717000217 hypothetical protein; Provisional; Region: PRK04435 212717000218 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 212717000219 DNA-binding interface [nucleotide binding]; DNA binding site 212717000220 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 212717000221 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 212717000222 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 212717000223 hydroxyglutarate oxidase; Provisional; Region: PRK11728 212717000224 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 212717000225 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 212717000226 active site 212717000227 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 212717000228 active site 212717000229 HI0933-like protein; Region: HI0933_like; pfam03486 212717000230 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 212717000231 CoA binding domain; Region: CoA_binding_2; pfam13380 212717000232 PEP synthetase regulatory protein; Provisional; Region: PRK05339 212717000233 DNA replication protein DnaC; Validated; Region: PRK06835 212717000234 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 212717000235 Walker A motif; other site 212717000236 ATP binding site [chemical binding]; other site 212717000237 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 212717000238 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 212717000239 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 212717000240 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 212717000241 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 212717000242 FMN binding site [chemical binding]; other site 212717000243 substrate binding site [chemical binding]; other site 212717000244 putative catalytic residue [active] 212717000245 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 212717000246 MarR family; Region: MarR_2; pfam12802 212717000247 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 212717000248 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 212717000249 dimer interface [polypeptide binding]; other site 212717000250 active site 212717000251 CoA binding pocket [chemical binding]; other site 212717000252 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 212717000253 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 212717000254 FMN binding site [chemical binding]; other site 212717000255 substrate binding site [chemical binding]; other site 212717000256 putative catalytic residue [active] 212717000257 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 212717000258 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 212717000259 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 212717000260 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 212717000261 NAD(P) binding site [chemical binding]; other site 212717000262 homotetramer interface [polypeptide binding]; other site 212717000263 homodimer interface [polypeptide binding]; other site 212717000264 active site 212717000265 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 212717000266 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 212717000267 dimer interface [polypeptide binding]; other site 212717000268 active site 212717000269 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 212717000270 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 212717000271 carboxyltransferase (CT) interaction site; other site 212717000272 biotinylation site [posttranslational modification]; other site 212717000273 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 212717000274 biotin carboxylase; Validated; Region: PRK05586 212717000275 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 212717000276 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 212717000277 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 212717000278 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 212717000279 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 212717000280 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 212717000281 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 212717000282 putative transposase OrfB; Reviewed; Region: PHA02517 212717000283 HTH-like domain; Region: HTH_21; pfam13276 212717000284 Integrase core domain; Region: rve; pfam00665 212717000285 Integrase core domain; Region: rve_2; pfam13333 212717000286 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 212717000287 Ferritin-like domain; Region: Ferritin; pfam00210 212717000288 ferroxidase diiron center [ion binding]; other site 212717000289 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 212717000290 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 212717000291 active site 212717000292 catalytic residues [active] 212717000293 Protein of unknown function, DUF606; Region: DUF606; pfam04657 212717000294 dUTPase; Region: dUTPase_2; pfam08761 212717000295 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 212717000296 active site 212717000297 homodimer interface [polypeptide binding]; other site 212717000298 metal binding site [ion binding]; metal-binding site 212717000299 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 212717000300 4Fe-4S binding domain; Region: Fer4_5; pfam12801 212717000301 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 212717000302 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 212717000303 putative dimer interface [polypeptide binding]; other site 212717000304 putative anticodon binding site; other site 212717000305 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 212717000306 homodimer interface [polypeptide binding]; other site 212717000307 motif 1; other site 212717000308 motif 2; other site 212717000309 active site 212717000310 motif 3; other site 212717000311 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 212717000312 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 212717000313 Coenzyme A binding pocket [chemical binding]; other site 212717000314 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 212717000315 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 212717000316 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 212717000317 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 212717000318 catalytic residues [active] 212717000319 stationary phase survival protein SurE; Provisional; Region: PRK13933 212717000320 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 212717000321 EamA-like transporter family; Region: EamA; pfam00892 212717000322 EamA-like transporter family; Region: EamA; pfam00892 212717000323 methionine sulfoxide reductase A; Provisional; Region: PRK14054 212717000324 TraX protein; Region: TraX; cl05434 212717000325 biotin synthase; Region: bioB; TIGR00433 212717000326 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 212717000327 FeS/SAM binding site; other site 212717000328 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 212717000329 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 212717000330 amidohydrolase; Region: amidohydrolases; TIGR01891 212717000331 metal binding site [ion binding]; metal-binding site 212717000332 Transcriptional regulator [Transcription]; Region: LysR; COG0583 212717000333 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 212717000334 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 212717000335 dimerization interface [polypeptide binding]; other site 212717000336 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 212717000337 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 212717000338 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 212717000339 RNA binding surface [nucleotide binding]; other site 212717000340 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 212717000341 probable active site [active] 212717000342 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 212717000343 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 212717000344 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 212717000345 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717000346 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 212717000347 dimer interface [polypeptide binding]; other site 212717000348 phosphorylation site [posttranslational modification] 212717000349 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 212717000350 ATP binding site [chemical binding]; other site 212717000351 Mg2+ binding site [ion binding]; other site 212717000352 G-X-G motif; other site 212717000353 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 212717000354 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717000355 Walker A/P-loop; other site 212717000356 ATP binding site [chemical binding]; other site 212717000357 Q-loop/lid; other site 212717000358 ABC transporter signature motif; other site 212717000359 Walker B; other site 212717000360 D-loop; other site 212717000361 H-loop/switch region; other site 212717000362 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 212717000363 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 212717000364 active site 212717000365 phosphorylation site [posttranslational modification] 212717000366 intermolecular recognition site; other site 212717000367 dimerization interface [polypeptide binding]; other site 212717000368 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 212717000369 DNA binding site [nucleotide binding] 212717000370 Fibronectin-binding protein (FBP); Region: FBP; pfam07299 212717000371 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 212717000372 hypothetical protein; Provisional; Region: PRK05590 212717000373 Sporulation and spore germination; Region: Germane; pfam10646 212717000374 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 212717000375 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 212717000376 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 212717000377 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 212717000378 hinge; other site 212717000379 active site 212717000380 AKAP7 2'5' RNA ligase-like domain; Region: AKAP7_NLS; pfam10469 212717000381 glutamine synthetase, type I; Region: GlnA; TIGR00653 212717000382 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 212717000383 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 212717000384 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 212717000385 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 212717000386 non-specific DNA binding site [nucleotide binding]; other site 212717000387 salt bridge; other site 212717000388 sequence-specific DNA binding site [nucleotide binding]; other site 212717000389 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 212717000390 Catalytic site [active] 212717000391 Heme NO binding; Region: HNOB; pfam07700 212717000392 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 212717000393 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 212717000394 dimer interface [polypeptide binding]; other site 212717000395 putative CheW interface [polypeptide binding]; other site 212717000396 putative transposase OrfB; Reviewed; Region: PHA02517 212717000397 HTH-like domain; Region: HTH_21; pfam13276 212717000398 Integrase core domain; Region: rve; pfam00665 212717000399 Integrase core domain; Region: rve_2; pfam13333 212717000400 Uncharacterized membrane protein [Function unknown]; Region: COG3949 212717000401 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 212717000402 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 212717000403 FeS/SAM binding site; other site 212717000404 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 212717000405 2-phosphosulfolactate phosphatase; Provisional; Region: PRK00886 212717000406 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 212717000407 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 212717000408 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 212717000409 motif II; other site 212717000410 Iron only hydrogenase large subunit, C-terminal domain [General function prediction only]; Region: COG4624 212717000411 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 212717000412 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 212717000413 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 212717000414 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 212717000415 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 212717000416 pur operon repressor; Provisional; Region: PRK09213 212717000417 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 212717000418 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 212717000419 active site 212717000420 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 212717000421 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 212717000422 Substrate binding site; other site 212717000423 Mg++ binding site; other site 212717000424 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 212717000425 active site 212717000426 substrate binding site [chemical binding]; other site 212717000427 CoA binding site [chemical binding]; other site 212717000428 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 212717000429 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 212717000430 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 212717000431 active site 212717000432 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 212717000433 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 212717000434 active site 212717000435 phosphorylation site [posttranslational modification] 212717000436 intermolecular recognition site; other site 212717000437 dimerization interface [polypeptide binding]; other site 212717000438 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 212717000439 DNA binding site [nucleotide binding] 212717000440 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717000441 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 212717000442 dimerization interface [polypeptide binding]; other site 212717000443 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 212717000444 dimer interface [polypeptide binding]; other site 212717000445 phosphorylation site [posttranslational modification] 212717000446 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 212717000447 ATP binding site [chemical binding]; other site 212717000448 Mg2+ binding site [ion binding]; other site 212717000449 G-X-G motif; other site 212717000450 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 212717000451 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 212717000452 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 212717000453 protein binding site [polypeptide binding]; other site 212717000454 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 212717000455 putative active site [active] 212717000456 catalytic residue [active] 212717000457 transcription-repair coupling factor (mfd); Region: mfd; TIGR00580 212717000458 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 212717000459 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 212717000460 ATP binding site [chemical binding]; other site 212717000461 putative Mg++ binding site [ion binding]; other site 212717000462 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 212717000463 nucleotide binding region [chemical binding]; other site 212717000464 ATP-binding site [chemical binding]; other site 212717000465 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 212717000466 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 212717000467 stage V sporulation protein T; Region: spore_V_T; TIGR02851 212717000468 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 212717000469 stage V sporulation protein B; Region: spore_V_B; TIGR02900 212717000470 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 212717000471 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 212717000472 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 212717000473 putative SAM binding site [chemical binding]; other site 212717000474 putative homodimer interface [polypeptide binding]; other site 212717000475 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 212717000476 homodimer interface [polypeptide binding]; other site 212717000477 metal binding site [ion binding]; metal-binding site 212717000478 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 212717000479 homodimer interface [polypeptide binding]; other site 212717000480 active site 212717000481 putative chemical substrate binding site [chemical binding]; other site 212717000482 metal binding site [ion binding]; metal-binding site 212717000483 hypothetical protein; Provisional; Region: PRK05807 212717000484 S1_RPS1_repeat_hs4: 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_hs4; cd05692 212717000485 RNA binding site [nucleotide binding]; other site 212717000486 stage II sporulation protein E; Region: spore_II_E; TIGR02865 212717000487 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 212717000488 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 212717000489 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 212717000490 Ligand Binding Site [chemical binding]; other site 212717000491 TilS substrate C-terminal domain; Region: TilS_C; smart00977 212717000492 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 212717000493 active site 212717000494 FtsH Extracellular; Region: FtsH_ext; pfam06480 212717000495 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 212717000496 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 212717000497 Walker A motif; other site 212717000498 ATP binding site [chemical binding]; other site 212717000499 Walker B motif; other site 212717000500 arginine finger; other site 212717000501 Peptidase family M41; Region: Peptidase_M41; pfam01434 212717000502 Predicted thioesterase [General function prediction only]; Region: COG5496 212717000503 pantothenate kinase; Reviewed; Region: PRK13318 212717000504 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 212717000505 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 212717000506 FMN binding site [chemical binding]; other site 212717000507 active site 212717000508 catalytic residues [active] 212717000509 substrate binding site [chemical binding]; other site 212717000510 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 212717000511 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 212717000512 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 212717000513 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 212717000514 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 212717000515 dimer interface [polypeptide binding]; other site 212717000516 putative anticodon binding site; other site 212717000517 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 212717000518 motif 1; other site 212717000519 active site 212717000520 motif 2; other site 212717000521 motif 3; other site 212717000522 glycyl-tRNA synthetase; Provisional; Region: PRK04173 212717000523 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 212717000524 motif 1; other site 212717000525 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 212717000526 active site 212717000527 motif 2; other site 212717000528 motif 3; other site 212717000529 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 212717000530 anticodon binding site; other site 212717000531 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01710 212717000532 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 212717000533 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 212717000534 Domain of unknown function (DUF4324); Region: DUF4324; pfam14212 212717000535 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 212717000536 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 212717000537 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 212717000538 NAD-dependent deacetylase; Provisional; Region: PRK00481 212717000539 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 212717000540 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 212717000541 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 212717000542 metal binding site [ion binding]; metal-binding site 212717000543 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 212717000544 homodimer interface [polypeptide binding]; other site 212717000545 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212717000546 catalytic residue [active] 212717000547 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 212717000548 Thymidylate kinase; Region: Thymidylate_kin; pfam02223 212717000549 TMP-binding site; other site 212717000550 ATP-binding site [chemical binding]; other site 212717000551 DNA polymerase III subunit delta'; Validated; Region: PRK05564 212717000552 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 212717000553 Walker A motif; other site 212717000554 ATP binding site [chemical binding]; other site 212717000555 Walker B motif; other site 212717000556 arginine finger; other site 212717000557 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 212717000558 putative transposase OrfB; Reviewed; Region: PHA02517 212717000559 HTH-like domain; Region: HTH_21; pfam13276 212717000560 Integrase core domain; Region: rve; pfam00665 212717000561 Integrase core domain; Region: rve_2; pfam13333 212717000562 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 212717000563 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 212717000564 S-adenosylmethionine binding site [chemical binding]; other site 212717000565 Predicted methyltransferases [General function prediction only]; Region: COG0313 212717000566 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 212717000567 putative SAM binding site [chemical binding]; other site 212717000568 putative homodimer interface [polypeptide binding]; other site 212717000569 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 212717000570 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 212717000571 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 212717000572 NlpC/P60 family; Region: NLPC_P60; pfam00877 212717000573 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 212717000574 active site 212717000575 intersubunit interactions; other site 212717000576 catalytic residue [active] 212717000577 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 212717000578 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 212717000579 putative active site [active] 212717000580 putative metal binding site [ion binding]; other site 212717000581 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 212717000582 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 212717000583 nucleotide binding site [chemical binding]; other site 212717000584 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 212717000585 MutS domain III; Region: MutS_III; pfam05192 212717000586 ATP-binding cassette domain of MutS-like homolog; Region: ABC_MutS-like; cd03283 212717000587 Walker A/P-loop; other site 212717000588 ATP binding site [chemical binding]; other site 212717000589 Q-loop/lid; other site 212717000590 ABC transporter signature motif; other site 212717000591 Walker B; other site 212717000592 D-loop; other site 212717000593 H-loop/switch region; other site 212717000594 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 212717000595 homotrimer interaction site [polypeptide binding]; other site 212717000596 zinc binding site [ion binding]; other site 212717000597 CDP-binding sites; other site 212717000598 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 212717000599 homotrimer interaction site [polypeptide binding]; other site 212717000600 putative active site [active] 212717000601 Bacterial Ig-like domain; Region: Big_5; pfam13205 212717000602 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 212717000603 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 212717000604 Cation transport protein; Region: TrkH; cl17365 212717000605 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 212717000606 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 212717000607 TrkA-N domain; Region: TrkA_N; pfam02254 212717000608 TrkA-C domain; Region: TrkA_C; pfam02080 212717000609 TrkA-N domain; Region: TrkA_N; pfam02254 212717000610 TrkA-C domain; Region: TrkA_C; pfam02080 212717000611 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 212717000612 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 212717000613 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 212717000614 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 212717000615 Walker A/P-loop; other site 212717000616 ATP binding site [chemical binding]; other site 212717000617 Q-loop/lid; other site 212717000618 ABC transporter signature motif; other site 212717000619 Walker B; other site 212717000620 D-loop; other site 212717000621 H-loop/switch region; other site 212717000622 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 212717000623 Fe-S cluster binding site [ion binding]; other site 212717000624 active site 212717000625 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 212717000626 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 212717000627 active site 212717000628 HIGH motif; other site 212717000629 KMSKS motif; other site 212717000630 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 212717000631 tRNA binding surface [nucleotide binding]; other site 212717000632 anticodon binding site; other site 212717000633 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 212717000634 dimer interface [polypeptide binding]; other site 212717000635 putative tRNA-binding site [nucleotide binding]; other site 212717000636 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 212717000637 active site 212717000638 Domain of unknown function (DUF348); Region: DUF348; pfam03990 212717000639 Domain of unknown function (DUF348); Region: DUF348; pfam03990 212717000640 G5 domain; Region: G5; pfam07501 212717000641 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 212717000642 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 212717000643 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 212717000644 putative active site [active] 212717000645 putative metal binding site [ion binding]; other site 212717000646 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 212717000647 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 212717000648 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 212717000649 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 212717000650 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 212717000651 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 212717000652 putative proton-coupled thiamine transporter YuaJ; Region: thia_yuaJ; TIGR02357 212717000653 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 212717000654 ATP cone domain; Region: ATP-cone; pfam03477 212717000655 Class III ribonucleotide reductase; Region: RNR_III; cd01675 212717000656 effector binding site; other site 212717000657 active site 212717000658 Zn binding site [ion binding]; other site 212717000659 glycine loop; other site 212717000660 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 212717000661 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 212717000662 FeS/SAM binding site; other site 212717000663 glutamate racemase; Provisional; Region: PRK00865 212717000664 Bacterial Ig-like domain; Region: Big_5; pfam13205 212717000665 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 212717000666 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 212717000667 active site 212717000668 metal binding site [ion binding]; metal-binding site 212717000669 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 212717000670 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 212717000671 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 212717000672 active site 212717000673 metal binding site [ion binding]; metal-binding site 212717000674 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 212717000675 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 212717000676 HIGH motif; other site 212717000677 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 212717000678 active site 212717000679 KMSKS motif; other site 212717000680 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 212717000681 tRNA binding surface [nucleotide binding]; other site 212717000682 anticodon binding site; other site 212717000683 Transcriptional regulators [Transcription]; Region: PurR; COG1609 212717000684 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 212717000685 DNA binding site [nucleotide binding] 212717000686 domain linker motif; other site 212717000687 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 212717000688 AAA domain; Region: AAA_11; pfam13086 212717000689 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; cd01983 212717000690 AAA domain; Region: AAA_11; pfam13086 212717000691 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 212717000692 AAA domain; Region: AAA_12; pfam13087 212717000693 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 212717000694 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 212717000695 Substrate binding site; other site 212717000696 Cupin domain; Region: Cupin_2; cl17218 212717000697 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 212717000698 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 212717000699 FeS/SAM binding site; other site 212717000700 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 212717000701 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 212717000702 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 212717000703 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 212717000704 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 212717000705 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 212717000706 substrate binding site [chemical binding]; other site 212717000707 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 212717000708 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 212717000709 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 212717000710 active site 212717000711 ATP binding site [chemical binding]; other site 212717000712 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 212717000713 substrate binding site [chemical binding]; other site 212717000714 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 212717000715 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 212717000716 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 212717000717 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 212717000718 active site 212717000719 ATP binding site [chemical binding]; other site 212717000720 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 212717000721 substrate binding site [chemical binding]; other site 212717000722 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 212717000723 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 212717000724 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 212717000725 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 212717000726 dimer interface [polypeptide binding]; other site 212717000727 conserved gate region; other site 212717000728 putative PBP binding loops; other site 212717000729 ABC-ATPase subunit interface; other site 212717000730 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 212717000731 dimer interface [polypeptide binding]; other site 212717000732 conserved gate region; other site 212717000733 putative PBP binding loops; other site 212717000734 ABC-ATPase subunit interface; other site 212717000735 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 212717000736 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 212717000737 Walker A/P-loop; other site 212717000738 ATP binding site [chemical binding]; other site 212717000739 Q-loop/lid; other site 212717000740 ABC transporter signature motif; other site 212717000741 Walker B; other site 212717000742 D-loop; other site 212717000743 H-loop/switch region; other site 212717000744 Mga helix-turn-helix domain; Region: Mga; pfam05043 212717000745 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 212717000746 PRD domain; Region: PRD; pfam00874 212717000747 PRD domain; Region: PRD; pfam00874 212717000748 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 212717000749 active site 212717000750 P-loop; other site 212717000751 phosphorylation site [posttranslational modification] 212717000752 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 212717000753 active site 212717000754 phosphorylation site [posttranslational modification] 212717000755 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 212717000756 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 212717000757 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 212717000758 active site turn [active] 212717000759 phosphorylation site [posttranslational modification] 212717000760 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 212717000761 HPr interaction site; other site 212717000762 glycerol kinase (GK) interaction site [polypeptide binding]; other site 212717000763 active site 212717000764 phosphorylation site [posttranslational modification] 212717000765 YabG peptidase U57; Region: Peptidase_U57; pfam05582 212717000766 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 212717000767 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 212717000768 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 212717000769 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 212717000770 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 212717000771 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 212717000772 proposed catalytic triad [active] 212717000773 active site nucleophile [active] 212717000774 cyanophycin synthetase; Provisional; Region: PRK14016 212717000775 ATP-grasp domain; Region: ATP-grasp_4; cl17255 212717000776 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 212717000777 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 212717000778 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 212717000779 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 212717000780 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 212717000781 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 212717000782 Spore germination protein; Region: Spore_permease; cl17796 212717000783 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 212717000784 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 212717000785 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 212717000786 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 212717000787 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 212717000788 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 212717000789 germination protein YpeB; Region: spore_YpeB; TIGR02889 212717000790 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 212717000791 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 212717000792 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 212717000793 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 212717000794 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 212717000795 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 212717000796 Ligand Binding Site [chemical binding]; other site 212717000797 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 212717000798 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 212717000799 transcription termination factor Rho; Provisional; Region: PRK12608 212717000800 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 212717000801 RNA binding site [nucleotide binding]; other site 212717000802 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 212717000803 multimer interface [polypeptide binding]; other site 212717000804 Walker A motif; other site 212717000805 ATP binding site [chemical binding]; other site 212717000806 Walker B motif; other site 212717000807 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 212717000808 dimer interface [polypeptide binding]; other site 212717000809 putative CheW interface [polypeptide binding]; other site 212717000810 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 212717000811 PBP superfamily domain; Region: PBP_like; cl17867 212717000812 thymidine kinase; Provisional; Region: PRK04296 212717000813 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 212717000814 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 212717000815 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 212717000816 S-adenosylmethionine binding site [chemical binding]; other site 212717000817 peptide chain release factor 1; Validated; Region: prfA; PRK00591 212717000818 This domain is found in peptide chain release factors; Region: PCRF; smart00937 212717000819 RF-1 domain; Region: RF-1; pfam00472 212717000820 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 212717000821 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 212717000822 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 212717000823 Low molecular weight phosphatase family; Region: LMWPc; cd00115 212717000824 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 212717000825 active site 212717000826 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 212717000827 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 212717000828 active site 212717000829 Deoxycytidylate deaminase [Nucleotide transport and metabolism]; Region: ComEB; COG2131 212717000830 active site 212717000831 Zn binding site [ion binding]; other site 212717000832 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 212717000833 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 212717000834 Mg++ binding site [ion binding]; other site 212717000835 putative catalytic motif [active] 212717000836 substrate binding site [chemical binding]; other site 212717000837 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 212717000838 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 212717000839 active site 212717000840 homodimer interface [polypeptide binding]; other site 212717000841 putative acyltransferase; Provisional; Region: PRK05790 212717000842 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 212717000843 dimer interface [polypeptide binding]; other site 212717000844 active site 212717000845 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 212717000846 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 212717000847 hinge; other site 212717000848 active site 212717000849 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 212717000850 Stage II sporulation protein; Region: SpoIID; pfam08486 212717000851 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 212717000852 Peptidase family M23; Region: Peptidase_M23; pfam01551 212717000853 rod shape-determining protein Mbl; Provisional; Region: PRK13928 212717000854 MreB and similar proteins; Region: MreB_like; cd10225 212717000855 nucleotide binding site [chemical binding]; other site 212717000856 Mg binding site [ion binding]; other site 212717000857 putative protofilament interaction site [polypeptide binding]; other site 212717000858 RodZ interaction site [polypeptide binding]; other site 212717000859 Protein of unknown function (DUF1256); Region: DUF1256; pfam06866 212717000860 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 212717000861 Ligand Binding Site [chemical binding]; other site 212717000862 S-adenosylmethionine synthetase; Validated; Region: PRK05250 212717000863 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 212717000864 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 212717000865 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 212717000866 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 212717000867 AAA domain; Region: AAA_30; pfam13604 212717000868 Family description; Region: UvrD_C_2; pfam13538 212717000869 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 212717000870 comF family protein; Region: comF; TIGR00201 212717000871 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 212717000872 active site 212717000873 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 212717000874 30S subunit binding site; other site 212717000875 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 212717000876 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 212717000877 DEAD/DEAH box helicase; Region: DEAD; pfam00270 212717000878 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 212717000879 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 212717000880 nucleotide binding region [chemical binding]; other site 212717000881 ATP-binding site [chemical binding]; other site 212717000882 Secretory pathway protein Sec39; Region: Sec39; pfam08314 212717000883 SEC-C motif; Region: SEC-C; pfam02810 212717000884 peptide chain release factor 2; Provisional; Region: PRK05589 212717000885 This domain is found in peptide chain release factors; Region: PCRF; smart00937 212717000886 RF-1 domain; Region: RF-1; pfam00472 212717000887 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 212717000888 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 212717000889 Peptidase family M28; Region: Peptidase_M28; pfam04389 212717000890 metal binding site [ion binding]; metal-binding site 212717000891 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 212717000892 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 212717000893 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 212717000894 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 212717000895 RNA binding site [nucleotide binding]; other site 212717000896 Predicted membrane protein [Function unknown]; Region: COG3601 212717000897 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 212717000898 Predicted phosphohydrolase [General function prediction only]; Region: COG1768 212717000899 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 212717000900 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 212717000901 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 212717000902 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 212717000903 synthetase active site [active] 212717000904 NTP binding site [chemical binding]; other site 212717000905 metal binding site [ion binding]; metal-binding site 212717000906 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 212717000907 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 212717000908 HIGH motif; other site 212717000909 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 212717000910 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 212717000911 active site 212717000912 KMSKS motif; other site 212717000913 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 212717000914 tRNA binding surface [nucleotide binding]; other site 212717000915 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 212717000916 putative active site [active] 212717000917 signature motif; other site 212717000918 putative metal binding residues [ion binding]; other site 212717000919 putative triphosphate binding site [ion binding]; other site 212717000920 dimer interface [polypeptide binding]; other site 212717000921 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 212717000922 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 212717000923 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 212717000924 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 212717000925 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 212717000926 intersubunit interface [polypeptide binding]; other site 212717000927 active site 212717000928 zinc binding site [ion binding]; other site 212717000929 Na+ binding site [ion binding]; other site 212717000930 Predicted membrane protein [Function unknown]; Region: COG2323 212717000931 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 212717000932 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 212717000933 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 212717000934 active site 212717000935 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 212717000936 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 212717000937 FOG: CBS domain [General function prediction only]; Region: COG0517 212717000938 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 212717000939 putative lipid kinase; Reviewed; Region: PRK13059 212717000940 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 212717000941 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 212717000942 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 212717000943 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 212717000944 serine O-acetyltransferase; Region: cysE; TIGR01172 212717000945 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 212717000946 trimer interface [polypeptide binding]; other site 212717000947 active site 212717000948 substrate binding site [chemical binding]; other site 212717000949 CoA binding site [chemical binding]; other site 212717000950 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 212717000951 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 212717000952 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 212717000953 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 212717000954 putative acyl-acceptor binding pocket; other site 212717000955 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 212717000956 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 212717000957 minor groove reading motif; other site 212717000958 helix-hairpin-helix signature motif; other site 212717000959 substrate binding pocket [chemical binding]; other site 212717000960 active site 212717000961 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 212717000962 Malic enzyme, N-terminal domain; Region: malic; pfam00390 212717000963 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 212717000964 putative NAD(P) binding site [chemical binding]; other site 212717000965 competence damage-inducible protein A; Provisional; Region: PRK00549 212717000966 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 212717000967 putative MPT binding site; other site 212717000968 Competence-damaged protein; Region: CinA; pfam02464 212717000969 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 212717000970 Repair protein; Region: Repair_PSII; pfam04536 212717000971 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 212717000972 VanW like protein; Region: VanW; pfam04294 212717000973 G5 domain; Region: G5; pfam07501 212717000974 MoxR-like ATPases [General function prediction only]; Region: COG0714 212717000975 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 212717000976 Walker A motif; other site 212717000977 ATP binding site [chemical binding]; other site 212717000978 Walker B motif; other site 212717000979 arginine finger; other site 212717000980 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 212717000981 Protein of unknown function DUF58; Region: DUF58; pfam01882 212717000982 Probable transposase; Region: OrfB_IS605; pfam01385 212717000983 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 212717000984 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 212717000985 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 212717000986 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 212717000987 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 212717000988 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 212717000989 active site 212717000990 metal binding site [ion binding]; metal-binding site 212717000991 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 212717000992 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 212717000993 active site 212717000994 motif I; other site 212717000995 motif II; other site 212717000996 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 212717000997 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 212717000998 EDD domain protein, DegV family; Region: DegV; TIGR00762 212717000999 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 212717001000 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 212717001001 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 212717001002 ligand binding site [chemical binding]; other site 212717001003 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 212717001004 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717001005 Walker A/P-loop; other site 212717001006 ATP binding site [chemical binding]; other site 212717001007 Q-loop/lid; other site 212717001008 ABC transporter signature motif; other site 212717001009 Walker B; other site 212717001010 D-loop; other site 212717001011 H-loop/switch region; other site 212717001012 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 212717001013 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 212717001014 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 212717001015 TM-ABC transporter signature motif; other site 212717001016 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 212717001017 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 212717001018 TM-ABC transporter signature motif; other site 212717001019 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 212717001020 dimer interface [polypeptide binding]; other site 212717001021 conserved gate region; other site 212717001022 putative PBP binding loops; other site 212717001023 ABC-ATPase subunit interface; other site 212717001024 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 212717001025 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 212717001026 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 212717001027 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 212717001028 Walker A/P-loop; other site 212717001029 ATP binding site [chemical binding]; other site 212717001030 Q-loop/lid; other site 212717001031 ABC transporter signature motif; other site 212717001032 Walker B; other site 212717001033 D-loop; other site 212717001034 H-loop/switch region; other site 212717001035 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 212717001036 N(5)-(carboxyethyl)ornithine synthase; Region: ceo_syn; cd12181 212717001037 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 212717001038 putative active site [active] 212717001039 putative ligand binding site [chemical binding]; other site 212717001040 putative NAD(P) binding site [chemical binding]; other site 212717001041 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 212717001042 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 212717001043 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 212717001044 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 212717001045 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 212717001046 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 212717001047 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 212717001048 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 212717001049 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 212717001050 Phosphoglycerate kinase; Region: PGK; pfam00162 212717001051 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 212717001052 substrate binding site [chemical binding]; other site 212717001053 hinge regions; other site 212717001054 ADP binding site [chemical binding]; other site 212717001055 catalytic site [active] 212717001056 triosephosphate isomerase; Provisional; Region: PRK14567 212717001057 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 212717001058 substrate binding site [chemical binding]; other site 212717001059 dimer interface [polypeptide binding]; other site 212717001060 catalytic triad [active] 212717001061 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 212717001062 phosphoglyceromutase; Provisional; Region: PRK05434 212717001063 enolase; Provisional; Region: eno; PRK00077 212717001064 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 212717001065 dimer interface [polypeptide binding]; other site 212717001066 metal binding site [ion binding]; metal-binding site 212717001067 substrate binding pocket [chemical binding]; other site 212717001068 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 212717001069 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 212717001070 ribonuclease R; Region: RNase_R; TIGR02063 212717001071 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 212717001072 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 212717001073 RNB domain; Region: RNB; pfam00773 212717001074 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 212717001075 RNA binding site [nucleotide binding]; other site 212717001076 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 212717001077 SmpB-tmRNA interface; other site 212717001078 DNA adenine methylase (dam); Region: dam; TIGR00571 212717001079 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 212717001080 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 212717001081 DDE domain; Region: DDE_Tnp_IS240; pfam13610 212717001082 Integrase core domain; Region: rve; pfam00665 212717001083 Integrase core domain; Region: rve_3; pfam13683 212717001084 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 212717001085 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 212717001086 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 212717001087 active site 212717001088 phosphorylation site [posttranslational modification] 212717001089 intermolecular recognition site; other site 212717001090 dimerization interface [polypeptide binding]; other site 212717001091 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 212717001092 DNA binding site [nucleotide binding] 212717001093 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717001094 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 212717001095 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 212717001096 ATP binding site [chemical binding]; other site 212717001097 Mg2+ binding site [ion binding]; other site 212717001098 G-X-G motif; other site 212717001099 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 212717001100 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 212717001101 Walker A/P-loop; other site 212717001102 ATP binding site [chemical binding]; other site 212717001103 Q-loop/lid; other site 212717001104 ABC transporter signature motif; other site 212717001105 Walker B; other site 212717001106 D-loop; other site 212717001107 H-loop/switch region; other site 212717001108 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 212717001109 FtsX-like permease family; Region: FtsX; pfam02687 212717001110 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 212717001111 Sulphur transport; Region: Sulf_transp; pfam04143 212717001112 Transcriptional regulator [Transcription]; Region: LysR; COG0583 212717001113 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 212717001114 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 212717001115 putative dimerization interface [polypeptide binding]; other site 212717001116 putative inner membrane protein; Provisional; Region: PRK11099 212717001117 Sulphur transport; Region: Sulf_transp; pfam04143 212717001118 Sulphur transport; Region: Sulf_transp; pfam04143 212717001119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 212717001120 hypothetical protein; Provisional; Region: PRK13663 212717001121 DNA topoisomerase III; Provisional; Region: PRK07726 212717001122 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 212717001123 active site 212717001124 putative interdomain interaction site [polypeptide binding]; other site 212717001125 putative metal-binding site [ion binding]; other site 212717001126 putative nucleotide binding site [chemical binding]; other site 212717001127 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 212717001128 domain I; other site 212717001129 DNA binding groove [nucleotide binding] 212717001130 phosphate binding site [ion binding]; other site 212717001131 domain II; other site 212717001132 domain III; other site 212717001133 nucleotide binding site [chemical binding]; other site 212717001134 catalytic site [active] 212717001135 domain IV; other site 212717001136 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 212717001137 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 212717001138 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 212717001139 Walker A/P-loop; other site 212717001140 ATP binding site [chemical binding]; other site 212717001141 Q-loop/lid; other site 212717001142 ABC transporter signature motif; other site 212717001143 Walker B; other site 212717001144 D-loop; other site 212717001145 H-loop/switch region; other site 212717001146 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 212717001147 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 212717001148 dimer interface [polypeptide binding]; other site 212717001149 conserved gate region; other site 212717001150 putative PBP binding loops; other site 212717001151 ABC-ATPase subunit interface; other site 212717001152 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 212717001153 NMT1-like family; Region: NMT1_2; pfam13379 212717001154 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 212717001155 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 212717001156 dimer interface [polypeptide binding]; other site 212717001157 active site 212717001158 metal binding site [ion binding]; metal-binding site 212717001159 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; pfam01177 212717001160 hybrid cluster protein; Provisional; Region: PRK05290 212717001161 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 212717001162 ACS interaction site; other site 212717001163 CODH interaction site; other site 212717001164 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 212717001165 hybrid metal cluster; other site 212717001166 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 212717001167 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 212717001168 active site 212717001169 phosphorylation site [posttranslational modification] 212717001170 intermolecular recognition site; other site 212717001171 dimerization interface [polypeptide binding]; other site 212717001172 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 212717001173 DNA binding site [nucleotide binding] 212717001174 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717001175 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 212717001176 dimer interface [polypeptide binding]; other site 212717001177 phosphorylation site [posttranslational modification] 212717001178 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 212717001179 ATP binding site [chemical binding]; other site 212717001180 Mg2+ binding site [ion binding]; other site 212717001181 G-X-G motif; other site 212717001182 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 212717001183 pentamer interface [polypeptide binding]; other site 212717001184 dodecaamer interface [polypeptide binding]; other site 212717001185 Predicted membrane protein [Function unknown]; Region: COG2323 212717001186 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 212717001187 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 212717001188 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 212717001189 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 212717001190 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 212717001191 [2Fe-2S] cluster binding site [ion binding]; other site 212717001192 CGGC domain; Region: CGGC; pfam08821 212717001193 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 212717001194 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 212717001195 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 212717001196 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 212717001197 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 212717001198 Region found in RelA / SpoT proteins; Region: RelA_SpoT; pfam04607 212717001199 metal binding triad [ion binding]; metal-binding site 212717001200 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 212717001201 Ferritin-like domain; Region: Ferritin; pfam00210 212717001202 dinuclear metal binding motif [ion binding]; other site 212717001203 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 212717001204 peptidase T-like protein; Region: PepT-like; TIGR01883 212717001205 metal binding site [ion binding]; metal-binding site 212717001206 putative dimer interface [polypeptide binding]; other site 212717001207 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 212717001208 MarR family; Region: MarR; pfam01047 212717001209 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 212717001210 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 212717001211 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717001212 Walker A/P-loop; other site 212717001213 ATP binding site [chemical binding]; other site 212717001214 Q-loop/lid; other site 212717001215 ABC transporter signature motif; other site 212717001216 Walker B; other site 212717001217 D-loop; other site 212717001218 H-loop/switch region; other site 212717001219 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 212717001220 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 212717001221 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 212717001222 Walker A/P-loop; other site 212717001223 ATP binding site [chemical binding]; other site 212717001224 Q-loop/lid; other site 212717001225 ABC transporter signature motif; other site 212717001226 Walker B; other site 212717001227 D-loop; other site 212717001228 H-loop/switch region; other site 212717001229 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 212717001230 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 212717001231 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 212717001232 putative active site [active] 212717001233 catalytic site [active] 212717001234 putative metal binding site [ion binding]; other site 212717001235 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 212717001236 Mechanosensitive ion channel; Region: MS_channel; pfam00924 212717001237 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 212717001238 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 212717001239 flavodoxin; Provisional; Region: PRK05568 212717001240 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 212717001241 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 212717001242 metal binding site [ion binding]; metal-binding site 212717001243 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 212717001244 DNA polymerase IV; Provisional; Region: PRK14133 212717001245 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 212717001246 active site 212717001247 DNA binding site [nucleotide binding] 212717001248 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 212717001249 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 212717001250 Clostripain family; Region: Peptidase_C11; pfam03415 212717001251 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 212717001252 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 212717001253 hypothetical protein; Reviewed; Region: PRK12275 212717001254 four helix bundle protein; Region: TIGR02436 212717001255 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 212717001256 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 212717001257 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 212717001258 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 212717001259 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 212717001260 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 212717001261 putative transposase OrfB; Reviewed; Region: PHA02517 212717001262 HTH-like domain; Region: HTH_21; pfam13276 212717001263 Integrase core domain; Region: rve; pfam00665 212717001264 Integrase core domain; Region: rve_2; pfam13333 212717001265 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 212717001266 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 212717001267 G1 box; other site 212717001268 GTP/Mg2+ binding site [chemical binding]; other site 212717001269 Switch I region; other site 212717001270 G2 box; other site 212717001271 G3 box; other site 212717001272 Switch II region; other site 212717001273 G4 box; other site 212717001274 G5 box; other site 212717001275 Nucleoside recognition; Region: Gate; pfam07670 212717001276 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 212717001277 Nucleoside recognition; Region: Gate; pfam07670 212717001278 manganese transport transcriptional regulator; Provisional; Region: PRK03902 212717001279 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 212717001280 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 212717001281 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 212717001282 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 212717001283 active site 212717001284 substrate binding site [chemical binding]; other site 212717001285 metal binding site [ion binding]; metal-binding site 212717001286 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 212717001287 Sensory domain found in PocR; Region: PocR; pfam10114 212717001288 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717001289 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 212717001290 dimer interface [polypeptide binding]; other site 212717001291 phosphorylation site [posttranslational modification] 212717001292 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 212717001293 ATP binding site [chemical binding]; other site 212717001294 Mg2+ binding site [ion binding]; other site 212717001295 G-X-G motif; other site 212717001296 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 212717001297 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 212717001298 hypothetical protein; Provisional; Region: PRK05590 212717001299 SEC-C motif; Region: SEC-C; pfam02810 212717001300 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 212717001301 Acyltransferase family; Region: Acyl_transf_3; pfam01757 212717001302 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001303 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001304 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 212717001305 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 212717001306 Collagen binding domain; Region: Collagen_bind; pfam05737 212717001307 Cna protein B-type domain; Region: Cna_B; pfam05738 212717001308 Cna protein B-type domain; Region: Cna_B; pfam05738 212717001309 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 212717001310 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 212717001311 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 212717001312 HAMP domain; Region: HAMP; pfam00672 212717001313 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 212717001314 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 212717001315 dimer interface [polypeptide binding]; other site 212717001316 putative CheW interface [polypeptide binding]; other site 212717001317 Citrate transporter; Region: CitMHS; pfam03600 212717001318 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 212717001319 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 212717001320 active site 212717001321 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 212717001322 Coenzyme A transferase; Region: CoA_trans; smart00882 212717001323 Coenzyme A transferase; Region: CoA_trans; cl17247 212717001324 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 212717001325 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 212717001326 substrate binding site [chemical binding]; other site 212717001327 oxyanion hole (OAH) forming residues; other site 212717001328 trimer interface [polypeptide binding]; other site 212717001329 Predicted transcriptional regulators [Transcription]; Region: COG1733 212717001330 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 212717001331 putative DNA binding site [nucleotide binding]; other site 212717001332 dimerization interface [polypeptide binding]; other site 212717001333 putative Zn2+ binding site [ion binding]; other site 212717001334 mechanosensitive channel MscS; Provisional; Region: PRK10334 212717001335 Mechanosensitive ion channel; Region: MS_channel; pfam00924 212717001336 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 212717001337 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 212717001338 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 212717001339 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 212717001340 putative DNA binding site [nucleotide binding]; other site 212717001341 putative Zn2+ binding site [ion binding]; other site 212717001342 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 212717001343 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 212717001344 HlyD family secretion protein; Region: HlyD_3; pfam13437 212717001345 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 212717001346 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 212717001347 Walker A/P-loop; other site 212717001348 ATP binding site [chemical binding]; other site 212717001349 Q-loop/lid; other site 212717001350 ABC transporter signature motif; other site 212717001351 Walker B; other site 212717001352 D-loop; other site 212717001353 H-loop/switch region; other site 212717001354 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 212717001355 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 212717001356 FtsX-like permease family; Region: FtsX; pfam02687 212717001357 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 212717001358 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 212717001359 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001360 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001361 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001362 Predicted membrane protein [Function unknown]; Region: COG1511 212717001363 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 212717001364 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 212717001365 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 212717001366 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 212717001367 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 212717001368 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 212717001369 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 212717001370 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 212717001371 Leucine-rich repeats; other site 212717001372 Substrate binding site [chemical binding]; other site 212717001373 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 212717001374 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 212717001375 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 212717001376 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 212717001377 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 212717001378 Leucine rich repeat; Region: LRR_8; pfam13855 212717001379 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 212717001380 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 212717001381 Leucine-rich repeats; other site 212717001382 Substrate binding site [chemical binding]; other site 212717001383 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 212717001384 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 212717001385 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 212717001386 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 212717001387 Leucine-rich repeats; other site 212717001388 Substrate binding site [chemical binding]; other site 212717001389 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 212717001390 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 212717001391 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 212717001392 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 212717001393 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 212717001394 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 212717001395 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 212717001396 Transposase IS200 like; Region: Y1_Tnp; pfam01797 212717001397 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; cl07055 212717001398 DnaA box-binding interface [nucleotide binding]; other site 212717001399 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 212717001400 dimer interface [polypeptide binding]; other site 212717001401 pyridoxal binding site [chemical binding]; other site 212717001402 ATP binding site [chemical binding]; other site 212717001403 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 212717001404 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 212717001405 FeS/SAM binding site; other site 212717001406 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001407 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001408 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001409 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 212717001410 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 212717001411 DNA-binding site [nucleotide binding]; DNA binding site 212717001412 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 212717001413 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 212717001414 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 212717001415 putative active site [active] 212717001416 metal binding site [ion binding]; metal-binding site 212717001417 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 212717001418 intersubunit interface [polypeptide binding]; other site 212717001419 active site 212717001420 zinc binding site [ion binding]; other site 212717001421 Na+ binding site [ion binding]; other site 212717001422 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 212717001423 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 212717001424 substrate binding site [chemical binding]; other site 212717001425 ATP binding site [chemical binding]; other site 212717001426 KduI/IolB family; Region: KduI; pfam04962 212717001427 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 212717001428 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 212717001429 PYR/PP interface [polypeptide binding]; other site 212717001430 dimer interface [polypeptide binding]; other site 212717001431 TPP binding site [chemical binding]; other site 212717001432 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 212717001433 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 212717001434 TPP-binding site; other site 212717001435 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 212717001436 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 212717001437 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 212717001438 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 212717001439 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 212717001440 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 212717001441 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 212717001442 putative transporter; Provisional; Region: PRK10484 212717001443 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 212717001444 Na binding site [ion binding]; other site 212717001445 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001446 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001447 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001448 putative transposase OrfB; Reviewed; Region: PHA02517 212717001449 HTH-like domain; Region: HTH_21; pfam13276 212717001450 Integrase core domain; Region: rve; pfam00665 212717001451 Integrase core domain; Region: rve_2; pfam13333 212717001452 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001453 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001454 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001455 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_5; cd06242 212717001456 putative active site [active] 212717001457 Zn binding site [ion binding]; other site 212717001458 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001459 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001460 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001461 Leucine rich repeat; Region: LRR_8; pfam13855 212717001462 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001463 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001464 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001465 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 212717001466 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 212717001467 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001468 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001469 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001470 Predicted membrane protein [Function unknown]; Region: COG1971 212717001471 Domain of unknown function DUF; Region: DUF204; pfam02659 212717001472 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 212717001473 metal binding site 2 [ion binding]; metal-binding site 212717001474 putative DNA binding helix; other site 212717001475 metal binding site 1 [ion binding]; metal-binding site 212717001476 dimer interface [polypeptide binding]; other site 212717001477 structural Zn2+ binding site [ion binding]; other site 212717001478 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 212717001479 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 212717001480 Zn2+ binding site [ion binding]; other site 212717001481 Mg2+ binding site [ion binding]; other site 212717001482 Rhomboid family; Region: Rhomboid; pfam01694 212717001483 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 212717001484 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 212717001485 Walker A motif; other site 212717001486 ATP binding site [chemical binding]; other site 212717001487 Walker B motif; other site 212717001488 arginine finger; other site 212717001489 Peptidase family M41; Region: Peptidase_M41; pfam01434 212717001490 Uncharacterized conserved protein [Function unknown]; Region: COG3339 212717001491 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 212717001492 non-specific DNA binding site [nucleotide binding]; other site 212717001493 salt bridge; other site 212717001494 sequence-specific DNA binding site [nucleotide binding]; other site 212717001495 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 212717001496 non-specific DNA binding site [nucleotide binding]; other site 212717001497 salt bridge; other site 212717001498 sequence-specific DNA binding site [nucleotide binding]; other site 212717001499 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 212717001500 Clp amino terminal domain; Region: Clp_N; pfam02861 212717001501 Clp amino terminal domain; Region: Clp_N; pfam02861 212717001502 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 212717001503 Walker A motif; other site 212717001504 ATP binding site [chemical binding]; other site 212717001505 Walker B motif; other site 212717001506 arginine finger; other site 212717001507 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 212717001508 Walker A motif; other site 212717001509 ATP binding site [chemical binding]; other site 212717001510 Walker B motif; other site 212717001511 arginine finger; other site 212717001512 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 212717001513 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 212717001514 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 212717001515 NodB motif; other site 212717001516 active site 212717001517 catalytic site [active] 212717001518 Zn binding site [ion binding]; other site 212717001519 Sulfatase; Region: Sulfatase; cl17466 212717001520 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 212717001521 Sulfatase; Region: Sulfatase; cl17466 212717001522 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 212717001523 catalytic triad [active] 212717001524 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 212717001525 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 212717001526 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 212717001527 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 212717001528 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 212717001529 putative active site [active] 212717001530 putative metal binding site [ion binding]; other site 212717001531 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 212717001532 TPR motif; other site 212717001533 Tetratricopeptide repeat; Region: TPR_12; pfam13424 212717001534 binding surface 212717001535 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 212717001536 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 212717001537 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 212717001538 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 212717001539 Domain of unknown function (DUF4324); Region: DUF4324; pfam14212 212717001540 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 212717001541 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 212717001542 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 212717001543 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 212717001544 putative acyl-acceptor binding pocket; other site 212717001545 RNA polymerase sigma factor; Provisional; Region: PRK11924 212717001546 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 212717001547 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 212717001548 DNA binding residues [nucleotide binding] 212717001549 GAF domain; Region: GAF; cl17456 212717001550 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 212717001551 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 212717001552 Walker A motif; other site 212717001553 ATP binding site [chemical binding]; other site 212717001554 Walker B motif; other site 212717001555 arginine finger; other site 212717001556 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 212717001557 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 212717001558 substrate binding pocket [chemical binding]; other site 212717001559 membrane-bound complex binding site; other site 212717001560 hinge residues; other site 212717001561 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 212717001562 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 212717001563 substrate binding pocket [chemical binding]; other site 212717001564 membrane-bound complex binding site; other site 212717001565 hinge residues; other site 212717001566 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 212717001567 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 212717001568 dimer interface [polypeptide binding]; other site 212717001569 conserved gate region; other site 212717001570 putative PBP binding loops; other site 212717001571 ABC-ATPase subunit interface; other site 212717001572 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 212717001573 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 212717001574 Walker A/P-loop; other site 212717001575 ATP binding site [chemical binding]; other site 212717001576 Q-loop/lid; other site 212717001577 ABC transporter signature motif; other site 212717001578 Walker B; other site 212717001579 D-loop; other site 212717001580 H-loop/switch region; other site 212717001581 argininosuccinate synthase; Provisional; Region: PRK13820 212717001582 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 212717001583 ANP binding site [chemical binding]; other site 212717001584 Substrate Binding Site II [chemical binding]; other site 212717001585 Substrate Binding Site I [chemical binding]; other site 212717001586 argininosuccinate lyase; Provisional; Region: PRK00855 212717001587 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 212717001588 active sites [active] 212717001589 tetramer interface [polypeptide binding]; other site 212717001590 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 212717001591 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 212717001592 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 212717001593 glutaminase A; Region: Gln_ase; TIGR03814 212717001594 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 212717001595 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 212717001596 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 212717001597 putative DNA binding site [nucleotide binding]; other site 212717001598 putative Zn2+ binding site [ion binding]; other site 212717001599 AsnC family; Region: AsnC_trans_reg; pfam01037 212717001600 threonine synthase; Validated; Region: PRK06260 212717001601 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 212717001602 homodimer interface [polypeptide binding]; other site 212717001603 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212717001604 catalytic residue [active] 212717001605 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 212717001606 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 212717001607 active site 212717001608 dimer interface [polypeptide binding]; other site 212717001609 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 212717001610 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 212717001611 Metal-binding active site; metal-binding site 212717001612 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 212717001613 intracellular protease, PfpI family; Region: PfpI; TIGR01382 212717001614 proposed catalytic triad [active] 212717001615 conserved cys residue [active] 212717001616 vitamin B12-dependent ribonucleotide reductase; Validated; Region: PRK06556 212717001617 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 212717001618 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 212717001619 active site 212717001620 dimer interface [polypeptide binding]; other site 212717001621 effector binding site; other site 212717001622 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 212717001623 TSCPD domain; Region: TSCPD; pfam12637 212717001624 Rrf2 family protein; Region: rrf2_super; TIGR00738 212717001625 Transcriptional regulator; Region: Rrf2; pfam02082 212717001626 Protein of unknown function (DUF1361); Region: DUF1361; pfam07099 212717001627 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 212717001628 active site 212717001629 tetramer interface [polypeptide binding]; other site 212717001630 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 212717001631 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 212717001632 active site 212717001633 metal binding site [ion binding]; metal-binding site 212717001634 DNA binding site [nucleotide binding] 212717001635 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 212717001636 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 212717001637 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 212717001638 Walker A/P-loop; other site 212717001639 ATP binding site [chemical binding]; other site 212717001640 Q-loop/lid; other site 212717001641 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 212717001642 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 212717001643 ABC transporter signature motif; other site 212717001644 Walker B; other site 212717001645 D-loop; other site 212717001646 H-loop/switch region; other site 212717001647 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 212717001648 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 212717001649 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 212717001650 ABC transporter; Region: ABC_tran_2; pfam12848 212717001651 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 212717001652 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 212717001653 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 212717001654 active site 212717001655 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 212717001656 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 212717001657 active site 212717001658 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 212717001659 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 212717001660 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 212717001661 Haemolysin-III related; Region: HlyIII; cl03831 212717001662 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 212717001663 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 212717001664 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 212717001665 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 212717001666 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717001667 Walker A/P-loop; other site 212717001668 ATP binding site [chemical binding]; other site 212717001669 Q-loop/lid; other site 212717001670 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 212717001671 ABC transporter signature motif; other site 212717001672 ABC transporter; Region: ABC_tran_2; pfam12848 212717001673 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 212717001674 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 212717001675 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 212717001676 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 212717001677 E-class dimer interface [polypeptide binding]; other site 212717001678 P-class dimer interface [polypeptide binding]; other site 212717001679 active site 212717001680 Cu2+ binding site [ion binding]; other site 212717001681 Zn2+ binding site [ion binding]; other site 212717001682 DHHW protein; Region: DHHW; pfam14286 212717001683 DHHW protein; Region: DHHW; pfam14286 212717001684 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 212717001685 Domain of unknown function (DUF4358); Region: DUF4358; pfam14270 212717001686 NnaC (CMP-NeuNAc synthetase) _like subfamily of 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: NnaC_like; cd01841 212717001687 active site 212717001688 catalytic triad [active] 212717001689 oxyanion hole [active] 212717001690 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 212717001691 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 212717001692 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 212717001693 Peptidase M14 carboxypeptidase family-like domain of Endopeptidase I; Region: M14_Endopeptidase_I; cd06229 212717001694 putative active site [active] 212717001695 Zn binding site [ion binding]; other site 212717001696 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 212717001697 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 212717001698 dimer interface [polypeptide binding]; other site 212717001699 active site 212717001700 metal binding site [ion binding]; metal-binding site 212717001701 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 212717001702 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 212717001703 active site 212717001704 phosphorylation site [posttranslational modification] 212717001705 intermolecular recognition site; other site 212717001706 dimerization interface [polypeptide binding]; other site 212717001707 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 212717001708 DNA binding site [nucleotide binding] 212717001709 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717001710 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 212717001711 dimerization interface [polypeptide binding]; other site 212717001712 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 212717001713 dimer interface [polypeptide binding]; other site 212717001714 phosphorylation site [posttranslational modification] 212717001715 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 212717001716 ATP binding site [chemical binding]; other site 212717001717 Mg2+ binding site [ion binding]; other site 212717001718 G-X-G motif; other site 212717001719 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 212717001720 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 212717001721 Predicted transcriptional regulators [Transcription]; Region: COG1695 212717001722 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 212717001723 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 212717001724 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 212717001725 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 212717001726 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 212717001727 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 212717001728 active site 1 [active] 212717001729 active site 2 [active] 212717001730 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 212717001731 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 212717001732 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 212717001733 DNA binding residues [nucleotide binding] 212717001734 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 212717001735 Tetratricopeptide repeat; Region: TPR_16; pfam13432 212717001736 binding surface 212717001737 TPR motif; other site 212717001738 LytTr DNA-binding domain; Region: LytTR; pfam04397 212717001739 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 212717001740 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 212717001741 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 212717001742 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 212717001743 DNA binding residues [nucleotide binding] 212717001744 Predicted transcriptional regulators [Transcription]; Region: COG1695 212717001745 Transcriptional regulator PadR-like family; Region: PadR; cl17335 212717001746 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 212717001747 Transposase IS200 like; Region: Y1_Tnp; pfam01797 212717001748 Probable transposase; Region: OrfB_IS605; pfam01385 212717001749 Probable transposase; Region: OrfB_IS605; pfam01385 212717001750 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 212717001751 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 212717001752 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 212717001753 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 212717001754 Walker A/P-loop; other site 212717001755 ATP binding site [chemical binding]; other site 212717001756 Q-loop/lid; other site 212717001757 ABC transporter signature motif; other site 212717001758 Walker B; other site 212717001759 D-loop; other site 212717001760 H-loop/switch region; other site 212717001761 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 212717001762 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 212717001763 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 212717001764 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 212717001765 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 212717001766 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 212717001767 active site 212717001768 phosphorylation site [posttranslational modification] 212717001769 intermolecular recognition site; other site 212717001770 dimerization interface [polypeptide binding]; other site 212717001771 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 212717001772 DNA binding site [nucleotide binding] 212717001773 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717001774 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 212717001775 dimer interface [polypeptide binding]; other site 212717001776 phosphorylation site [posttranslational modification] 212717001777 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 212717001778 ATP binding site [chemical binding]; other site 212717001779 Mg2+ binding site [ion binding]; other site 212717001780 G-X-G motif; other site 212717001781 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 212717001782 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 212717001783 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 212717001784 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 212717001785 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 212717001786 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 212717001787 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 212717001788 Walker A/P-loop; other site 212717001789 ATP binding site [chemical binding]; other site 212717001790 Q-loop/lid; other site 212717001791 ABC transporter signature motif; other site 212717001792 Walker B; other site 212717001793 D-loop; other site 212717001794 H-loop/switch region; other site 212717001795 Fic/DOC family; Region: Fic; pfam02661 212717001796 Helix-turn-helix domain; Region: HTH_18; pfam12833 212717001797 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 212717001798 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 212717001799 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 212717001800 putative deacylase active site [active] 212717001801 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 212717001802 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 212717001803 non-specific DNA binding site [nucleotide binding]; other site 212717001804 salt bridge; other site 212717001805 sequence-specific DNA binding site [nucleotide binding]; other site 212717001806 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 212717001807 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 212717001808 Coenzyme A binding pocket [chemical binding]; other site 212717001809 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 212717001810 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 212717001811 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 212717001812 Walker A/P-loop; other site 212717001813 ATP binding site [chemical binding]; other site 212717001814 Q-loop/lid; other site 212717001815 ABC transporter signature motif; other site 212717001816 Walker B; other site 212717001817 D-loop; other site 212717001818 H-loop/switch region; other site 212717001819 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 212717001820 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 212717001821 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 212717001822 S1 domain; Region: S1_2; pfam13509 212717001823 S1 domain; Region: S1_2; pfam13509 212717001824 Uncharacterized conserved protein [Function unknown]; Region: COG2928 212717001825 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 212717001826 Zn2+ binding site [ion binding]; other site 212717001827 Mg2+ binding site [ion binding]; other site 212717001828 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 212717001829 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 212717001830 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 212717001831 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b3; cd09205 212717001832 PLD-like domain; Region: PLDc_2; pfam13091 212717001833 putative homodimer interface [polypeptide binding]; other site 212717001834 putative active site [active] 212717001835 catalytic site [active] 212717001836 DEAD-like helicases superfamily; Region: DEXDc; smart00487 212717001837 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 212717001838 ATP binding site [chemical binding]; other site 212717001839 putative Mg++ binding site [ion binding]; other site 212717001840 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 212717001841 nucleotide binding region [chemical binding]; other site 212717001842 ATP-binding site [chemical binding]; other site 212717001843 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from archaea and bacteria; Region: NTP-PPase_COG4997; cd11532 212717001844 metal binding site [ion binding]; metal-binding site 212717001845 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 212717001846 dimer interface [polypeptide binding]; other site 212717001847 Alkaline phosphatase homologues; Region: alkPPc; smart00098 212717001848 active site 212717001849 Chromate transporter; Region: Chromate_transp; pfam02417 212717001850 Chromate transporter; Region: Chromate_transp; pfam02417 212717001851 golgi membrane calcium-translocating P-type ATPase; Region: ATPase-IIA2_Ca; TIGR01522 212717001852 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 212717001853 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 212717001854 Soluble P-type ATPase [General function prediction only]; Region: COG4087 212717001855 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 212717001856 RNA polymerase sigma factor; Provisional; Region: PRK12522 212717001857 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 212717001858 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 212717001859 DNA binding residues [nucleotide binding] 212717001860 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 212717001861 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 212717001862 Double zinc ribbon; Region: DZR; pfam12773 212717001863 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 212717001864 Protein of unknown function (DUF327); Region: DUF327; pfam03885 212717001865 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 212717001866 M20 Peptidase Aminoacylase 1-like protein 2, amidohydrolase family; Region: M20_Acy1L2_like_2; cd09849 212717001867 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 212717001868 metal binding site [ion binding]; metal-binding site 212717001869 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 212717001870 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 212717001871 catalytic motif [active] 212717001872 Zn binding site [ion binding]; other site 212717001873 RibD C-terminal domain; Region: RibD_C; cl17279 212717001874 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 212717001875 Lumazine binding domain; Region: Lum_binding; pfam00677 212717001876 Lumazine binding domain; Region: Lum_binding; pfam00677 212717001877 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 212717001878 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 212717001879 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 212717001880 dimerization interface [polypeptide binding]; other site 212717001881 active site 212717001882 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 212717001883 homopentamer interface [polypeptide binding]; other site 212717001884 active site 212717001885 FMN-binding domain; Region: FMN_bind; cl01081 212717001886 FMN-binding domain; Region: FMN_bind; pfam04205 212717001887 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 212717001888 Zn2+ binding site [ion binding]; other site 212717001889 Mg2+ binding site [ion binding]; other site 212717001890 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 212717001891 active site 212717001892 NAD synthetase; Reviewed; Region: nadE; PRK02628 212717001893 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 212717001894 multimer interface [polypeptide binding]; other site 212717001895 active site 212717001896 catalytic triad [active] 212717001897 protein interface 1 [polypeptide binding]; other site 212717001898 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 212717001899 homodimer interface [polypeptide binding]; other site 212717001900 NAD binding pocket [chemical binding]; other site 212717001901 ATP binding pocket [chemical binding]; other site 212717001902 Mg binding site [ion binding]; other site 212717001903 active-site loop [active] 212717001904 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 212717001905 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 212717001906 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 212717001907 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 212717001908 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 212717001909 ATP-grasp domain; Region: ATP-grasp_4; cl17255 212717001910 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 212717001911 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 212717001912 DNA-binding site [nucleotide binding]; DNA binding site 212717001913 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 212717001914 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212717001915 homodimer interface [polypeptide binding]; other site 212717001916 catalytic residue [active] 212717001917 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 212717001918 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 212717001919 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 212717001920 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 212717001921 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 212717001922 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 212717001923 DNA binding residues [nucleotide binding] 212717001924 Protein of unknown function DUF262; Region: DUF262; pfam03235 212717001925 Uncharacterized conserved protein [Function unknown]; Region: COG1479 212717001926 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 212717001927 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001928 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001929 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001930 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 212717001931 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 212717001932 Part of AAA domain; Region: AAA_19; pfam13245 212717001933 Family description; Region: UvrD_C_2; pfam13538 212717001934 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 212717001935 AP (apurinic/apyrimidinic) site pocket; other site 212717001936 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 212717001937 DNA interaction; other site 212717001938 Metal-binding active site; metal-binding site 212717001939 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 212717001940 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 212717001941 ligand binding site [chemical binding]; other site 212717001942 NAD binding site [chemical binding]; other site 212717001943 dimerization interface [polypeptide binding]; other site 212717001944 catalytic site [active] 212717001945 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 212717001946 putative L-serine binding site [chemical binding]; other site 212717001947 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 212717001948 homodimer interface [polypeptide binding]; other site 212717001949 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212717001950 catalytic residue [active] 212717001951 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001952 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 212717001953 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001954 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717001955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 212717001956 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 212717001957 Isochorismatase family; Region: Isochorismatase; pfam00857 212717001958 catalytic triad [active] 212717001959 conserved cis-peptide bond; other site 212717001960 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 212717001961 fructuronate transporter; Provisional; Region: PRK10034; cl15264 212717001962 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 212717001963 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 212717001964 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 212717001965 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 212717001966 dimer interface [polypeptide binding]; other site 212717001967 putative CheW interface [polypeptide binding]; other site 212717001968 WYL domain; Region: WYL; pfam13280 212717001969 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 212717001970 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 212717001971 metal binding site [ion binding]; metal-binding site 212717001972 active site 212717001973 I-site; other site 212717001974 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 212717001975 dimer interaction site [polypeptide binding]; other site 212717001976 substrate-binding tunnel; other site 212717001977 active site 212717001978 catalytic site [active] 212717001979 substrate binding site [chemical binding]; other site 212717001980 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 212717001981 PAS domain; Region: PAS; smart00091 212717001982 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 212717001983 Walker A motif; other site 212717001984 ATP binding site [chemical binding]; other site 212717001985 Walker B motif; other site 212717001986 arginine finger; other site 212717001987 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 212717001988 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 212717001989 Coenzyme A transferase; Region: CoA_trans; smart00882 212717001990 Coenzyme A transferase; Region: CoA_trans; cl17247 212717001991 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 212717001992 fructuronate transporter; Provisional; Region: PRK10034; cl15264 212717001993 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 212717001994 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 212717001995 FAD binding site [chemical binding]; other site 212717001996 homotetramer interface [polypeptide binding]; other site 212717001997 substrate binding pocket [chemical binding]; other site 212717001998 catalytic base [active] 212717001999 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 212717002000 Ligand binding site [chemical binding]; other site 212717002001 Electron transfer flavoprotein domain; Region: ETF; pfam01012 212717002002 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 212717002003 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 212717002004 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 212717002005 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 212717002006 Family description; Region: UvrD_C_2; pfam13538 212717002007 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 212717002008 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717002009 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 212717002010 dimer interface [polypeptide binding]; other site 212717002011 phosphorylation site [posttranslational modification] 212717002012 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 212717002013 ATP binding site [chemical binding]; other site 212717002014 Mg2+ binding site [ion binding]; other site 212717002015 G-X-G motif; other site 212717002016 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717002017 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 212717002018 ATP binding site [chemical binding]; other site 212717002019 Mg2+ binding site [ion binding]; other site 212717002020 G-X-G motif; other site 212717002021 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 212717002022 catalytic core [active] 212717002023 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 212717002024 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 212717002025 homotrimer interface [polypeptide binding]; other site 212717002026 Walker A motif; other site 212717002027 GTP binding site [chemical binding]; other site 212717002028 Walker B motif; other site 212717002029 cobalamin synthase; Reviewed; Region: cobS; PRK00235 212717002030 cobyric acid synthase; Provisional; Region: PRK00784 212717002031 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 212717002032 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 212717002033 catalytic triad [active] 212717002034 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 212717002035 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 212717002036 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 212717002037 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212717002038 homodimer interface [polypeptide binding]; other site 212717002039 catalytic residue [active] 212717002040 cobalt transport protein CbiM; Validated; Region: PRK08319 212717002041 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 212717002042 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 212717002043 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 212717002044 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 212717002045 tRNA; other site 212717002046 putative tRNA binding site [nucleotide binding]; other site 212717002047 putative NADP binding site [chemical binding]; other site 212717002048 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 212717002049 precorrin-2 dehydrogenase; Provisional; Region: PRK05562 212717002050 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 212717002051 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 212717002052 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 212717002053 domain interfaces; other site 212717002054 active site 212717002055 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 212717002056 active site 212717002057 SAM binding site [chemical binding]; other site 212717002058 homodimer interface [polypeptide binding]; other site 212717002059 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 212717002060 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 212717002061 active site 212717002062 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; cd00384 212717002063 dimer interface [polypeptide binding]; other site 212717002064 active site 212717002065 Schiff base residues; other site 212717002066 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 212717002067 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 212717002068 inhibitor-cofactor binding pocket; inhibition site 212717002069 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212717002070 catalytic residue [active] 212717002071 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 212717002072 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 212717002073 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 212717002074 catalytic triad [active] 212717002075 precorrin-8X methylmutase; Validated; Region: cbiC; PRK05575 212717002076 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 212717002077 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 212717002078 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 212717002079 active site 212717002080 putative homodimer interface [polypeptide binding]; other site 212717002081 SAM binding site [chemical binding]; other site 212717002082 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 212717002083 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 212717002084 S-adenosylmethionine binding site [chemical binding]; other site 212717002085 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 212717002086 active site 212717002087 SAM binding site [chemical binding]; other site 212717002088 homodimer interface [polypeptide binding]; other site 212717002089 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 212717002090 active site 212717002091 SAM binding site [chemical binding]; other site 212717002092 homodimer interface [polypeptide binding]; other site 212717002093 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 212717002094 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 212717002095 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 212717002096 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 212717002097 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 212717002098 active site 212717002099 SAM binding site [chemical binding]; other site 212717002100 homodimer interface [polypeptide binding]; other site 212717002101 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 212717002102 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 212717002103 AIR synthase related protein, N-terminal domain; Region: AIRS; pfam00586 212717002104 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 212717002105 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 212717002106 active site 212717002107 C-terminal domain interface [polypeptide binding]; other site 212717002108 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 212717002109 active site 212717002110 N-terminal domain interface [polypeptide binding]; other site 212717002111 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 212717002112 homodimer interface [polypeptide binding]; other site 212717002113 Walker A motif; other site 212717002114 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 212717002115 ATP binding site [chemical binding]; other site 212717002116 hydroxycobalamin binding site [chemical binding]; other site 212717002117 Walker B motif; other site 212717002118 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 212717002119 homodimer interface [polypeptide binding]; other site 212717002120 Walker A motif; other site 212717002121 ATP binding site [chemical binding]; other site 212717002122 hydroxycobalamin binding site [chemical binding]; other site 212717002123 Walker B motif; other site 212717002124 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 212717002125 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 212717002126 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 212717002127 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 212717002128 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 212717002129 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 212717002130 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 212717002131 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717002132 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717002133 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717002134 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 212717002135 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 212717002136 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 212717002137 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 212717002138 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 212717002139 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 212717002140 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 212717002141 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 212717002142 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 212717002143 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 212717002144 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 212717002145 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 212717002146 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 212717002147 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 212717002148 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 212717002149 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 212717002150 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 212717002151 Cobalt transport protein; Region: CbiQ; cl00463 212717002152 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717002153 Walker A/P-loop; other site 212717002154 ATP binding site [chemical binding]; other site 212717002155 Q-loop/lid; other site 212717002156 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717002157 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 212717002158 ABC transporter signature motif; other site 212717002159 Walker B; other site 212717002160 D-loop; other site 212717002161 H-loop/switch region; other site 212717002162 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 212717002163 Second domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain2; cd03226 212717002164 Walker A/P-loop; other site 212717002165 ATP binding site [chemical binding]; other site 212717002166 Q-loop/lid; other site 212717002167 ABC transporter signature motif; other site 212717002168 Walker B; other site 212717002169 D-loop; other site 212717002170 H-loop/switch region; other site 212717002171 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 212717002172 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 212717002173 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 212717002174 NodB motif; other site 212717002175 active site 212717002176 catalytic site [active] 212717002177 Zn binding site [ion binding]; other site 212717002178 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 212717002179 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717002180 Walker A/P-loop; other site 212717002181 ATP binding site [chemical binding]; other site 212717002182 Q-loop/lid; other site 212717002183 ABC transporter signature motif; other site 212717002184 Walker B; other site 212717002185 D-loop; other site 212717002186 H-loop/switch region; other site 212717002187 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 212717002188 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 212717002189 MoxR-like ATPases [General function prediction only]; Region: COG0714 212717002190 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 212717002191 Walker A motif; other site 212717002192 ATP binding site [chemical binding]; other site 212717002193 Walker B motif; other site 212717002194 arginine finger; other site 212717002195 Protein of unknown function DUF58; Region: DUF58; pfam01882 212717002196 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 212717002197 von Willebrand factor type A domain; Region: VWA_2; pfam13519 212717002198 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 212717002199 metal ion-dependent adhesion site (MIDAS); other site 212717002200 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 212717002201 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 212717002202 metal ion-dependent adhesion site (MIDAS); other site 212717002203 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 212717002204 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 212717002205 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 212717002206 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 212717002207 Prenyltransferase-like; Region: Prenyltrans_1; pfam13243 212717002208 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 212717002209 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 212717002210 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 212717002211 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 212717002212 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717002213 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717002214 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717002215 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717002216 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717002217 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717002218 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 212717002219 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 212717002220 mutatrotase, YjhT family; Region: muta_rot_YjhT; TIGR03547 212717002221 Kelch motif; Region: Kelch_6; pfam13964 212717002222 Kelch motif; Region: Kelch_6; pfam13964 212717002223 Kelch motif; Region: Kelch_5; pfam13854 212717002224 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 212717002225 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 212717002226 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 212717002227 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 212717002228 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 212717002229 active site 212717002230 substrate binding site [chemical binding]; other site 212717002231 metal binding site [ion binding]; metal-binding site 212717002232 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 212717002233 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 212717002234 active site 212717002235 nucleophile elbow; other site 212717002236 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 212717002237 dimer interface [polypeptide binding]; other site 212717002238 active site 212717002239 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 212717002240 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 212717002241 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 212717002242 Walker A/P-loop; other site 212717002243 ATP binding site [chemical binding]; other site 212717002244 Q-loop/lid; other site 212717002245 ABC transporter signature motif; other site 212717002246 Walker B; other site 212717002247 D-loop; other site 212717002248 H-loop/switch region; other site 212717002249 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 212717002250 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 212717002251 ABC-ATPase subunit interface; other site 212717002252 dimer interface [polypeptide binding]; other site 212717002253 putative PBP binding regions; other site 212717002254 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 212717002255 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 212717002256 putative binding site residues; other site 212717002257 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 212717002258 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 212717002259 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 212717002260 putative transposase OrfB; Reviewed; Region: PHA02517 212717002261 HTH-like domain; Region: HTH_21; pfam13276 212717002262 Integrase core domain; Region: rve; pfam00665 212717002263 Integrase core domain; Region: rve_2; pfam13333 212717002264 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 212717002265 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 212717002266 N-terminal domain interface [polypeptide binding]; other site 212717002267 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 212717002268 Peptidase family M50; Region: Peptidase_M50; pfam02163 212717002269 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 212717002270 active site 212717002271 putative substrate binding region [chemical binding]; other site 212717002272 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 212717002273 S-adenosylmethionine binding site [chemical binding]; other site 212717002274 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 212717002275 dimer interface [polypeptide binding]; other site 212717002276 catalytic triad [active] 212717002277 peroxidatic and resolving cysteines [active] 212717002278 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 212717002279 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 212717002280 NAD(P) binding site [chemical binding]; other site 212717002281 active site 212717002282 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 212717002283 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 212717002284 Walker A/P-loop; other site 212717002285 ATP binding site [chemical binding]; other site 212717002286 Q-loop/lid; other site 212717002287 ABC transporter signature motif; other site 212717002288 Walker B; other site 212717002289 D-loop; other site 212717002290 H-loop/switch region; other site 212717002291 Predicted transcriptional regulators [Transcription]; Region: COG1725 212717002292 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 212717002293 DNA-binding site [nucleotide binding]; DNA binding site 212717002294 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 212717002295 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 212717002296 active site 212717002297 phosphorylation site [posttranslational modification] 212717002298 intermolecular recognition site; other site 212717002299 dimerization interface [polypeptide binding]; other site 212717002300 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 212717002301 DNA binding site [nucleotide binding] 212717002302 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717002303 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 212717002304 dimerization interface [polypeptide binding]; other site 212717002305 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 212717002306 dimer interface [polypeptide binding]; other site 212717002307 phosphorylation site [posttranslational modification] 212717002308 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 212717002309 ATP binding site [chemical binding]; other site 212717002310 Mg2+ binding site [ion binding]; other site 212717002311 G-X-G motif; other site 212717002312 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 212717002313 EamA-like transporter family; Region: EamA; cl17759 212717002314 EamA-like transporter family; Region: EamA; pfam00892 212717002315 OsmC-like protein; Region: OsmC; pfam02566 212717002316 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 212717002317 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 212717002318 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 212717002319 Peptidase M16C associated; Region: M16C_assoc; pfam08367 212717002320 FMN-binding domain; Region: FMN_bind; cl01081 212717002321 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 212717002322 L-aspartate oxidase; Provisional; Region: PRK06175 212717002323 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 212717002324 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 212717002325 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 212717002326 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 212717002327 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 212717002328 active site 212717002329 NTP binding site [chemical binding]; other site 212717002330 metal binding triad [ion binding]; metal-binding site 212717002331 antibiotic binding site [chemical binding]; other site 212717002332 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 212717002333 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 212717002334 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 212717002335 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 212717002336 homodimer interface [polypeptide binding]; other site 212717002337 active site 212717002338 FMN binding site [chemical binding]; other site 212717002339 substrate binding site [chemical binding]; other site 212717002340 4Fe-4S binding domain; Region: Fer4; pfam00037 212717002341 CAAX protease self-immunity; Region: Abi; cl00558 212717002342 tyrosine phenol-lyase; Provisional; Region: PRK13237 212717002343 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 212717002344 substrate binding site [chemical binding]; other site 212717002345 tetramer interface [polypeptide binding]; other site 212717002346 catalytic residue [active] 212717002347 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 212717002348 Na2 binding site [ion binding]; other site 212717002349 putative substrate binding site 1 [chemical binding]; other site 212717002350 Na binding site 1 [ion binding]; other site 212717002351 putative substrate binding site 2 [chemical binding]; other site 212717002352 Transcriptional regulators [Transcription]; Region: FadR; COG2186 212717002353 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 212717002354 DNA-binding site [nucleotide binding]; DNA binding site 212717002355 FCD domain; Region: FCD; pfam07729 212717002356 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 212717002357 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 212717002358 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 212717002359 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 212717002360 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 212717002361 aspartate racemase; Region: asp_race; TIGR00035 212717002362 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 212717002363 Aspartase; Region: Aspartase; cd01357 212717002364 active sites [active] 212717002365 tetramer interface [polypeptide binding]; other site 212717002366 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 212717002367 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 212717002368 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212717002369 homodimer interface [polypeptide binding]; other site 212717002370 catalytic residue [active] 212717002371 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 212717002372 Rubredoxin; Region: Rubredoxin; pfam00301 212717002373 iron binding site [ion binding]; other site 212717002374 Rubrerythrin [Energy production and conversion]; Region: COG1592 212717002375 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 212717002376 diiron binding motif [ion binding]; other site 212717002377 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 212717002378 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 212717002379 active site 212717002380 motif I; other site 212717002381 motif II; other site 212717002382 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 212717002383 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 212717002384 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 212717002385 putative transposase OrfB; Reviewed; Region: PHA02517 212717002386 HTH-like domain; Region: HTH_21; pfam13276 212717002387 Integrase core domain; Region: rve; pfam00665 212717002388 Integrase core domain; Region: rve_2; pfam13333 212717002389 HesB-like selenoprotein; Region: HesB_rel_seleno; TIGR01911 212717002390 Nuclear pore assembly and biogenesis; Region: Apq12; pfam12716 212717002391 HutD; Region: HutD; pfam05962 212717002392 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 212717002393 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 212717002394 metal binding site [ion binding]; metal-binding site 212717002395 active site 212717002396 I-site; other site 212717002397 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 212717002398 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 212717002399 NodB motif; other site 212717002400 putative active site [active] 212717002401 putative catalytic site [active] 212717002402 putative Zn binding site [ion binding]; other site 212717002403 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 212717002404 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 212717002405 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 212717002406 DXD motif; other site 212717002407 Bacterial cellulose synthase subunit; Region: BcsB; pfam03170 212717002408 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 212717002409 Nucleoside recognition; Region: Gate; pfam07670 212717002410 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 212717002411 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 212717002412 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 212717002413 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 212717002414 MgtC family; Region: MgtC; pfam02308 212717002415 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 212717002416 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_1; cd12161 212717002417 putative ligand binding site [chemical binding]; other site 212717002418 putative NAD binding site [chemical binding]; other site 212717002419 catalytic site [active] 212717002420 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 212717002421 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 212717002422 FeS/SAM binding site; other site 212717002423 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 212717002424 Radical SAM superfamily; Region: Radical_SAM; pfam04055 212717002425 FeS/SAM binding site; other site 212717002426 Ethanolamine utilisation protein, EutH; Region: EutH; cl01248 212717002427 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 212717002428 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 212717002429 active site 212717002430 phosphorylation site [posttranslational modification] 212717002431 intermolecular recognition site; other site 212717002432 dimerization interface [polypeptide binding]; other site 212717002433 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 212717002434 DNA binding site [nucleotide binding] 212717002435 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717002436 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 212717002437 dimerization interface [polypeptide binding]; other site 212717002438 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 212717002439 dimer interface [polypeptide binding]; other site 212717002440 phosphorylation site [posttranslational modification] 212717002441 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 212717002442 ATP binding site [chemical binding]; other site 212717002443 Mg2+ binding site [ion binding]; other site 212717002444 G-X-G motif; other site 212717002445 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 212717002446 Biotin operon repressor [Transcription]; Region: BirA; COG1654 212717002447 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 212717002448 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 212717002449 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 212717002450 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 212717002451 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 212717002452 FeS/SAM binding site; other site 212717002453 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 212717002454 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 212717002455 dimer interface [polypeptide binding]; other site 212717002456 putative CheW interface [polypeptide binding]; other site 212717002457 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 212717002458 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 212717002459 dimer interface [polypeptide binding]; other site 212717002460 active site 212717002461 CoA binding pocket [chemical binding]; other site 212717002462 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 212717002463 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 212717002464 ligand binding site [chemical binding]; other site 212717002465 calcium binding site [ion binding]; other site 212717002466 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 212717002467 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717002468 Walker A/P-loop; other site 212717002469 ATP binding site [chemical binding]; other site 212717002470 Q-loop/lid; other site 212717002471 ABC transporter signature motif; other site 212717002472 Walker B; other site 212717002473 D-loop; other site 212717002474 H-loop/switch region; other site 212717002475 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 212717002476 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 212717002477 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 212717002478 TM-ABC transporter signature motif; other site 212717002479 Transcriptional regulators [Transcription]; Region: PurR; COG1609 212717002480 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 212717002481 DNA binding site [nucleotide binding] 212717002482 domain linker motif; other site 212717002483 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 212717002484 dimerization interface [polypeptide binding]; other site 212717002485 ligand binding site [chemical binding]; other site 212717002486 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 212717002487 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 212717002488 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 212717002489 galactokinase; Provisional; Region: PRK05322 212717002490 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 212717002491 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 212717002492 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 212717002493 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 212717002494 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 212717002495 NAD binding site [chemical binding]; other site 212717002496 homodimer interface [polypeptide binding]; other site 212717002497 active site 212717002498 substrate binding site [chemical binding]; other site 212717002499 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 212717002500 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 212717002501 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 212717002502 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 212717002503 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 212717002504 DNA binding residues [nucleotide binding] 212717002505 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 212717002506 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 212717002507 putative ATP binding site [chemical binding]; other site 212717002508 putative substrate interface [chemical binding]; other site 212717002509 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 212717002510 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 212717002511 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 212717002512 dimanganese center [ion binding]; other site 212717002513 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 212717002514 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 212717002515 active site 212717002516 phosphorylation site [posttranslational modification] 212717002517 intermolecular recognition site; other site 212717002518 dimerization interface [polypeptide binding]; other site 212717002519 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 212717002520 DNA binding site [nucleotide binding] 212717002521 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717002522 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 212717002523 dimer interface [polypeptide binding]; other site 212717002524 phosphorylation site [posttranslational modification] 212717002525 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 212717002526 ATP binding site [chemical binding]; other site 212717002527 Mg2+ binding site [ion binding]; other site 212717002528 G-X-G motif; other site 212717002529 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 212717002530 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 212717002531 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 212717002532 motif II; other site 212717002533 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 212717002534 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 212717002535 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 212717002536 PhoU domain; Region: PhoU; pfam01895 212717002537 PhoU domain; Region: PhoU; pfam01895 212717002538 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 212717002539 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 212717002540 5S rRNA interface [nucleotide binding]; other site 212717002541 CTC domain interface [polypeptide binding]; other site 212717002542 L16 interface [polypeptide binding]; other site 212717002543 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 212717002544 Predicted membrane protein [Function unknown]; Region: COG4684 212717002545 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 212717002546 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 212717002547 active site 212717002548 catalytic triad [active] 212717002549 oxyanion hole [active] 212717002550 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 212717002551 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 212717002552 protein binding site [polypeptide binding]; other site 212717002553 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 212717002554 Catalytic dyad [active] 212717002555 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 212717002556 catalytic residues [active] 212717002557 EDD domain protein, DegV family; Region: DegV; TIGR00762 212717002558 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 212717002559 Predicted transcriptional regulators [Transcription]; Region: COG1695 212717002560 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 212717002561 homoserine dehydrogenase; Validated; Region: PRK06813 212717002562 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 212717002563 Cache domain; Region: Cache_1; pfam02743 212717002564 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 212717002565 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 212717002566 dimerization interface [polypeptide binding]; other site 212717002567 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 212717002568 dimer interface [polypeptide binding]; other site 212717002569 putative CheW interface [polypeptide binding]; other site 212717002570 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 212717002571 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 212717002572 FeS/SAM binding site; other site 212717002573 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 212717002574 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 212717002575 Alanine dehydrogenase and related dehydrogenases; Region: Ala_dh_like; cd01620 212717002576 putative ligand binding site [chemical binding]; other site 212717002577 NAD(P) binding site [chemical binding]; other site 212717002578 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 212717002579 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 212717002580 DNA-binding site [nucleotide binding]; DNA binding site 212717002581 TrkA-C domain; Region: TrkA_C; pfam02080 212717002582 peroxiredoxin; Provisional; Region: PRK13189 212717002583 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 212717002584 dimer interface [polypeptide binding]; other site 212717002585 decamer (pentamer of dimers) interface [polypeptide binding]; other site 212717002586 catalytic triad [active] 212717002587 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 212717002588 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 212717002589 active site 212717002590 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 212717002591 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 212717002592 ligand binding site [chemical binding]; other site 212717002593 flexible hinge region; other site 212717002594 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 212717002595 Predicted permease; Region: DUF318; cl17795 212717002596 Predicted permease; Region: DUF318; cl17795 212717002597 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 212717002598 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 212717002599 spore photoproduct lyase; Region: photo_TT_lyase; TIGR04070 212717002600 Radical SAM superfamily; Region: Radical_SAM; pfam04055 212717002601 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 212717002602 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 212717002603 RbsD / FucU transport protein family; Region: RbsD_FucU; pfam05025 212717002604 Transcriptional regulators [Transcription]; Region: PurR; COG1609 212717002605 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 212717002606 DNA binding site [nucleotide binding] 212717002607 domain linker motif; other site 212717002608 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 212717002609 dimerization interface [polypeptide binding]; other site 212717002610 ligand binding site [chemical binding]; other site 212717002611 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 212717002612 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 212717002613 Walker A/P-loop; other site 212717002614 ATP binding site [chemical binding]; other site 212717002615 Q-loop/lid; other site 212717002616 ABC transporter signature motif; other site 212717002617 Walker B; other site 212717002618 D-loop; other site 212717002619 H-loop/switch region; other site 212717002620 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 212717002621 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 212717002622 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 212717002623 TM-ABC transporter signature motif; other site 212717002624 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 212717002625 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 212717002626 putative ligand binding site [chemical binding]; other site 212717002627 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 212717002628 putative active site [active] 212717002629 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 212717002630 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 212717002631 substrate binding site [chemical binding]; other site 212717002632 dimer interface [polypeptide binding]; other site 212717002633 ATP binding site [chemical binding]; other site 212717002634 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 212717002635 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 212717002636 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 212717002637 hypothetical protein; Provisional; Region: PRK02487 212717002638 HD supefamily hydrolase [General function prediction only]; Region: COG3294 212717002639 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 212717002640 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 212717002641 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 212717002642 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 212717002643 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 212717002644 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717002645 Walker A/P-loop; other site 212717002646 ATP binding site [chemical binding]; other site 212717002647 Q-loop/lid; other site 212717002648 ABC transporter signature motif; other site 212717002649 Walker B; other site 212717002650 D-loop; other site 212717002651 H-loop/switch region; other site 212717002652 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 212717002653 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 212717002654 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717002655 Walker A/P-loop; other site 212717002656 ATP binding site [chemical binding]; other site 212717002657 Q-loop/lid; other site 212717002658 ABC transporter signature motif; other site 212717002659 Walker B; other site 212717002660 D-loop; other site 212717002661 H-loop/switch region; other site 212717002662 maltose O-acetyltransferase; Provisional; Region: PRK10092 212717002663 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 212717002664 active site 212717002665 substrate binding site [chemical binding]; other site 212717002666 trimer interface [polypeptide binding]; other site 212717002667 CoA binding site [chemical binding]; other site 212717002668 Transposase domain (DUF772); Region: DUF772; pfam05598 212717002669 FtsX-like permease family; Region: FtsX; pfam02687 212717002670 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 212717002671 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 212717002672 Walker A/P-loop; other site 212717002673 ATP binding site [chemical binding]; other site 212717002674 Q-loop/lid; other site 212717002675 ABC transporter signature motif; other site 212717002676 Walker B; other site 212717002677 D-loop; other site 212717002678 H-loop/switch region; other site 212717002679 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 212717002680 non-specific DNA binding site [nucleotide binding]; other site 212717002681 salt bridge; other site 212717002682 sequence-specific DNA binding site [nucleotide binding]; other site 212717002683 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 212717002684 Cache domain; Region: Cache_1; pfam02743 212717002685 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 212717002686 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 212717002687 dimerization interface [polypeptide binding]; other site 212717002688 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 212717002689 dimer interface [polypeptide binding]; other site 212717002690 putative CheW interface [polypeptide binding]; other site 212717002691 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 212717002692 DRTGG domain; Region: DRTGG; pfam07085 212717002693 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 212717002694 allantoate amidohydrolase; Reviewed; Region: PRK12893 212717002695 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 212717002696 active site 212717002697 metal binding site [ion binding]; metal-binding site 212717002698 dimer interface [polypeptide binding]; other site 212717002699 dihydroorotase; Validated; Region: pyrC; PRK09357 212717002700 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 212717002701 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 212717002702 active site 212717002703 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 212717002704 Na binding site [ion binding]; other site 212717002705 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 212717002706 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 212717002707 FAD binding pocket [chemical binding]; other site 212717002708 FAD binding motif [chemical binding]; other site 212717002709 phosphate binding motif [ion binding]; other site 212717002710 beta-alpha-beta structure motif; other site 212717002711 NAD binding pocket [chemical binding]; other site 212717002712 Iron coordination center [ion binding]; other site 212717002713 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 212717002714 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 212717002715 heterodimer interface [polypeptide binding]; other site 212717002716 active site 212717002717 FMN binding site [chemical binding]; other site 212717002718 homodimer interface [polypeptide binding]; other site 212717002719 substrate binding site [chemical binding]; other site 212717002720 Amino acid permease; Region: AA_permease_2; pfam13520 212717002721 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 212717002722 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 212717002723 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 212717002724 active site 212717002725 Sensory domain found in PocR; Region: PocR; pfam10114 212717002726 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 212717002727 Histidine kinase; Region: His_kinase; pfam06580 212717002728 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 212717002729 ATP binding site [chemical binding]; other site 212717002730 Mg2+ binding site [ion binding]; other site 212717002731 G-X-G motif; other site 212717002732 Response regulator receiver domain; Region: Response_reg; pfam00072 212717002733 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 212717002734 active site 212717002735 phosphorylation site [posttranslational modification] 212717002736 intermolecular recognition site; other site 212717002737 dimerization interface [polypeptide binding]; other site 212717002738 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 212717002739 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 212717002740 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 212717002741 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 212717002742 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 212717002743 dimer interface [polypeptide binding]; other site 212717002744 active site 212717002745 glycine loop; other site 212717002746 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 212717002747 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 212717002748 FeS/SAM binding site; other site 212717002749 TIGR03943 family protein; Region: TIGR03943 212717002750 Predicted permeases [General function prediction only]; Region: COG0701 212717002751 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 212717002752 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 212717002753 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 212717002754 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 212717002755 Cache domain; Region: Cache_1; pfam02743 212717002756 HAMP domain; Region: HAMP; pfam00672 212717002757 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 212717002758 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 212717002759 dimer interface [polypeptide binding]; other site 212717002760 putative CheW interface [polypeptide binding]; other site 212717002761 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 212717002762 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 212717002763 DNA binding residues [nucleotide binding] 212717002764 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 212717002765 L-fuculose phosphate aldolase; Provisional; Region: PRK06833 212717002766 intersubunit interface [polypeptide binding]; other site 212717002767 active site 212717002768 Zn2+ binding site [ion binding]; other site 212717002769 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 212717002770 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 212717002771 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 212717002772 Phosphotransferase enzyme family; Region: APH; pfam01636 212717002773 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 212717002774 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 212717002775 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 212717002776 DNA binding residues [nucleotide binding] 212717002777 drug binding residues [chemical binding]; other site 212717002778 dimer interface [polypeptide binding]; other site 212717002779 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 212717002780 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 212717002781 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 212717002782 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 212717002783 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 212717002784 active site 212717002785 phosphorylation site [posttranslational modification] 212717002786 intermolecular recognition site; other site 212717002787 dimerization interface [polypeptide binding]; other site 212717002788 LytTr DNA-binding domain; Region: LytTR; pfam04397 212717002789 Cache domain; Region: Cache_2; pfam08269 212717002790 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 212717002791 dimerization interface [polypeptide binding]; other site 212717002792 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 212717002793 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 212717002794 dimer interface [polypeptide binding]; other site 212717002795 putative CheW interface [polypeptide binding]; other site 212717002796 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 212717002797 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 212717002798 ABC transporter signature motif; other site 212717002799 Walker B; other site 212717002800 D-loop; other site 212717002801 H-loop/switch region; other site 212717002802 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 212717002803 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 212717002804 ABC-ATPase subunit interface; other site 212717002805 dimer interface [polypeptide binding]; other site 212717002806 putative PBP binding regions; other site 212717002807 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 212717002808 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 212717002809 putative ligand binding residues [chemical binding]; other site 212717002810 bifunctional 3-dehydroquinate dehydratase/shikimate dehydrogenase protein; Reviewed; Region: aroDE; PRK09310 212717002811 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 212717002812 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 212717002813 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 212717002814 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 212717002815 putative ligand binding residues [chemical binding]; other site 212717002816 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 212717002817 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 212717002818 ABC-ATPase subunit interface; other site 212717002819 dimer interface [polypeptide binding]; other site 212717002820 putative PBP binding regions; other site 212717002821 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 212717002822 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 212717002823 Walker A/P-loop; other site 212717002824 ATP binding site [chemical binding]; other site 212717002825 Q-loop/lid; other site 212717002826 ABC transporter signature motif; other site 212717002827 Walker B; other site 212717002828 D-loop; other site 212717002829 H-loop/switch region; other site 212717002830 This putative domain contains a quite highly conserved sequence of CGGC in its central region; Region: CGGC; smart01078 212717002831 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 212717002832 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 212717002833 catalytic residues [active] 212717002834 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 212717002835 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 212717002836 active site 212717002837 zinc binding site [ion binding]; other site 212717002838 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 212717002839 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 212717002840 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 212717002841 active site 212717002842 HIGH motif; other site 212717002843 KMSK motif region; other site 212717002844 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 212717002845 tRNA binding surface [nucleotide binding]; other site 212717002846 anticodon binding site; other site 212717002847 RNase_H superfamily; Region: RNase_H_2; pfam13482 212717002848 active site 212717002849 catalytic site [active] 212717002850 substrate binding site [chemical binding]; other site 212717002851 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 212717002852 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 212717002853 G1 box; other site 212717002854 GTP/Mg2+ binding site [chemical binding]; other site 212717002855 Switch I region; other site 212717002856 G2 box; other site 212717002857 G3 box; other site 212717002858 Switch II region; other site 212717002859 G4 box; other site 212717002860 G5 box; other site 212717002861 Nucleoside recognition; Region: Gate; pfam07670 212717002862 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 212717002863 Nucleoside recognition; Region: Gate; pfam07670 212717002864 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 212717002865 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 212717002866 motif II; other site 212717002867 RNase_H superfamily; Region: RNase_H_2; pfam13482 212717002868 Transcriptional regulators [Transcription]; Region: FadR; COG2186 212717002869 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 212717002870 DNA-binding site [nucleotide binding]; DNA binding site 212717002871 FCD domain; Region: FCD; pfam07729 212717002872 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 212717002873 L-lactate permease; Region: Lactate_perm; cl00701 212717002874 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 212717002875 Ligand binding site [chemical binding]; other site 212717002876 Electron transfer flavoprotein domain; Region: ETF; pfam01012 212717002877 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 212717002878 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 212717002879 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 212717002880 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 212717002881 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 212717002882 FAD binding domain; Region: FAD_binding_4; pfam01565 212717002883 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 212717002884 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 212717002885 active site 212717002886 HIGH motif; other site 212717002887 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 212717002888 active site 212717002889 KMSKS motif; other site 212717002890 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 212717002891 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 212717002892 Beta-Casp domain; Region: Beta-Casp; smart01027 212717002893 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 212717002894 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 212717002895 EamA-like transporter family; Region: EamA; pfam00892 212717002896 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 212717002897 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 212717002898 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 212717002899 putative active site [active] 212717002900 putative CoA binding site [chemical binding]; other site 212717002901 nudix motif; other site 212717002902 metal binding site [ion binding]; metal-binding site 212717002903 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 212717002904 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 212717002905 active site 212717002906 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 212717002907 Part of AAA domain; Region: AAA_19; pfam13245 212717002908 Family description; Region: UvrD_C_2; pfam13538 212717002909 cell division protein FtsA; Region: ftsA; TIGR01174 212717002910 Cell division protein FtsA; Region: FtsA; smart00842 212717002911 Cell division protein FtsA; Region: FtsA; pfam14450 212717002912 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 212717002913 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 212717002914 RNA binding surface [nucleotide binding]; other site 212717002915 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 212717002916 active site 212717002917 stage V sporulation protein B; Region: spore_V_B; TIGR02900 212717002918 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 212717002919 stage V sporulation protein B; Region: spore_V_B; TIGR02900 212717002920 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 212717002921 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 212717002922 Rubredoxin; Region: Rubredoxin; pfam00301 212717002923 iron binding site [ion binding]; other site 212717002924 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 212717002925 dinuclear metal binding motif [ion binding]; other site 212717002926 Zinc dependent phospholipase C (alpha toxin); Region: Zn_dep_PLPC; cd11009 212717002927 Zn binding site [ion binding]; other site 212717002928 B12 binding domain; Region: B12-binding; pfam02310 212717002929 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 212717002930 B12 binding site [chemical binding]; other site 212717002931 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 212717002932 V-type ATP synthase subunit H; Validated; Region: PRK08404 212717002933 V-type ATP synthase subunit I; Validated; Region: PRK05771 212717002934 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 212717002935 V-type ATP synthase subunit E; Provisional; Region: PRK03963; cl17074 212717002936 V-type ATP synthase subunit C; Provisional; Region: PRK01198 212717002937 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 212717002938 V-type ATP synthase subunit F; Provisional; Region: PRK01395 212717002939 V-type ATP synthase subunit A; Provisional; Region: PRK04192 212717002940 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 212717002941 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 212717002942 Walker A motif/ATP binding site; other site 212717002943 Walker B motif; other site 212717002944 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 212717002945 V-type ATP synthase subunit B; Provisional; Region: PRK04196 212717002946 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 212717002947 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 212717002948 Walker A motif homologous position; other site 212717002949 Walker B motif; other site 212717002950 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 212717002951 V-type ATP synthase subunit D; Reviewed; Region: PRK00373 212717002952 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 212717002953 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 212717002954 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 212717002955 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 212717002956 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 212717002957 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 212717002958 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 212717002959 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 212717002960 putative active site [active] 212717002961 Bacterial Ig-like domain; Region: Big_5; pfam13205 212717002962 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 212717002963 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 212717002964 active site 212717002965 metal binding site [ion binding]; metal-binding site 212717002966 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 212717002967 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 212717002968 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 212717002969 active site 212717002970 metal binding site [ion binding]; metal-binding site 212717002971 HPr kinase/phosphorylase; Provisional; Region: PRK05428 212717002972 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 212717002973 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 212717002974 Hpr binding site; other site 212717002975 active site 212717002976 homohexamer subunit interaction site [polypeptide binding]; other site 212717002977 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 212717002978 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 212717002979 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 212717002980 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 212717002981 oligomer interface [polypeptide binding]; other site 212717002982 putative active site [active] 212717002983 metal binding site [ion binding]; metal-binding site 212717002984 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 212717002985 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 212717002986 Sm and related proteins; Region: Sm_like; cl00259 212717002987 Sm1 motif; other site 212717002988 RNA binding site [nucleotide binding]; other site 212717002989 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 212717002990 Uncharacterized conserved protein [Function unknown]; Region: COG2966 212717002991 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 212717002992 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 212717002993 SLBB domain; Region: SLBB; pfam10531 212717002994 4Fe-4S binding domain; Region: Fer4_6; pfam12837 212717002995 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 212717002996 FMN-binding domain; Region: FMN_bind; cl01081 212717002997 electron transport complex RsxE subunit; Provisional; Region: PRK12405 212717002998 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 212717002999 ferredoxin; Validated; Region: PRK07118 212717003000 4Fe-4S binding domain; Region: Fer4; pfam00037 212717003001 4Fe-4S binding domain; Region: Fer4; pfam00037 212717003002 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 212717003003 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 212717003004 trimer interface [polypeptide binding]; other site 212717003005 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 212717003006 ApbE family; Region: ApbE; pfam02424 212717003007 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 212717003008 Sulfatase; Region: Sulfatase; cl17466 212717003009 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 212717003010 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 212717003011 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 212717003012 dimerization interface [polypeptide binding]; other site 212717003013 ATP binding site [chemical binding]; other site 212717003014 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 212717003015 dimerization interface [polypeptide binding]; other site 212717003016 ATP binding site [chemical binding]; other site 212717003017 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 212717003018 putative active site [active] 212717003019 catalytic triad [active] 212717003020 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 212717003021 active site 212717003022 DNA binding site [nucleotide binding] 212717003023 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 212717003024 TPR motif; other site 212717003025 binding surface 212717003026 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 212717003027 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 212717003028 dimer interface [polypeptide binding]; other site 212717003029 ADP-ribose binding site [chemical binding]; other site 212717003030 active site 212717003031 nudix motif; other site 212717003032 metal binding site [ion binding]; metal-binding site 212717003033 Sporulation and spore germination; Region: Germane; smart00909 212717003034 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 212717003035 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 212717003036 tetramer interface [polypeptide binding]; other site 212717003037 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212717003038 catalytic residue [active] 212717003039 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 212717003040 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 212717003041 sporulation protein YhbH; Region: spore_yhbH; TIGR02877 212717003042 SpoVR like protein; Region: SpoVR; pfam04293 212717003043 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 212717003044 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 212717003045 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 212717003046 putative catalytic cysteine [active] 212717003047 gamma-glutamyl kinase; Provisional; Region: PRK05429 212717003048 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 212717003049 nucleotide binding site [chemical binding]; other site 212717003050 homotetrameric interface [polypeptide binding]; other site 212717003051 putative phosphate binding site [ion binding]; other site 212717003052 putative allosteric binding site; other site 212717003053 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 212717003054 histidinol-phosphatase; Provisional; Region: PRK05588 212717003055 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 212717003056 active site 212717003057 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 212717003058 recombination factor protein RarA; Reviewed; Region: PRK13342 212717003059 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 212717003060 Walker A motif; other site 212717003061 ATP binding site [chemical binding]; other site 212717003062 Walker B motif; other site 212717003063 arginine finger; other site 212717003064 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 212717003065 Predicted transcriptional regulator [Transcription]; Region: COG1959 212717003066 Transcriptional regulator; Region: Rrf2; cl17282 212717003067 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 212717003068 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 212717003069 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 212717003070 catalytic residue [active] 212717003071 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 212717003072 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 212717003073 trimerization site [polypeptide binding]; other site 212717003074 active site 212717003075 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 212717003076 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 212717003077 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 212717003078 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 212717003079 Domain of unknown function DUF20; Region: UPF0118; pfam01594 212717003080 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 212717003081 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 212717003082 motif 1; other site 212717003083 active site 212717003084 motif 2; other site 212717003085 motif 3; other site 212717003086 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 212717003087 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 212717003088 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 212717003089 metal binding site 2 [ion binding]; metal-binding site 212717003090 putative DNA binding helix; other site 212717003091 metal binding site 1 [ion binding]; metal-binding site 212717003092 dimer interface [polypeptide binding]; other site 212717003093 structural Zn2+ binding site [ion binding]; other site 212717003094 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 212717003095 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 212717003096 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 212717003097 hypothetical protein; Provisional; Region: PRK13676 212717003098 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 212717003099 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 212717003100 G1 box; other site 212717003101 putative GEF interaction site [polypeptide binding]; other site 212717003102 GTP/Mg2+ binding site [chemical binding]; other site 212717003103 Switch I region; other site 212717003104 G2 box; other site 212717003105 G3 box; other site 212717003106 Switch II region; other site 212717003107 G4 box; other site 212717003108 G5 box; other site 212717003109 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 212717003110 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 212717003111 YceG-like family; Region: YceG; pfam02618 212717003112 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 212717003113 dimerization interface [polypeptide binding]; other site 212717003114 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 212717003115 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 212717003116 S-adenosylmethionine binding site [chemical binding]; other site 212717003117 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 212717003118 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 212717003119 Peptidase family U32; Region: Peptidase_U32; pfam01136 212717003120 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 212717003121 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 212717003122 Sugar specificity; other site 212717003123 Pyrimidine base specificity; other site 212717003124 ATP-binding site [chemical binding]; other site 212717003125 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 212717003126 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 212717003127 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 212717003128 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 212717003129 catalytic residues [active] 212717003130 catalytic nucleophile [active] 212717003131 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 212717003132 Recombinase; Region: Recombinase; pfam07508 212717003133 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 212717003134 Reovirus sigma C capsid protein; Region: Reo_sigmaC; pfam04582 212717003135 Domain of unknown function (DUF955); Region: DUF955; pfam06114 212717003136 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 212717003137 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 212717003138 sequence-specific DNA binding site [nucleotide binding]; other site 212717003139 salt bridge; other site 212717003140 BRO family, N-terminal domain; Region: Bro-N; smart01040 212717003141 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 212717003142 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 212717003143 Recombinational DNA repair protein (RecE pathway) [DNA replication, recombination, and repair]; Region: RecT; COG3723 212717003144 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 212717003145 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 212717003146 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 212717003147 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 212717003148 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 212717003149 dimerization interface [polypeptide binding]; other site 212717003150 DPS ferroxidase diiron center [ion binding]; other site 212717003151 ion pore; other site 212717003152 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; cl17220 212717003153 Phage terminase small subunit; Region: Phage_terminase; pfam10668 212717003154 Phage terminase, small subunit [DNA replication, recombination, and repair]; Region: XtmA; COG3728 212717003155 Phage terminase large subunit; Region: Terminase_3; cl12054 212717003156 Terminase-like family; Region: Terminase_6; pfam03237 212717003157 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 212717003158 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 212717003159 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 212717003160 DNA repair protein endonuclease SAE2/CtIP C-terminus; Region: SAE2; pfam08573 212717003161 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 212717003162 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 212717003163 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 212717003164 DNA polymerase III subunit epsilon; Validated; Region: PRK06807 212717003165 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 212717003166 active site 212717003167 catalytic site [active] 212717003168 substrate binding site [chemical binding]; other site 212717003169 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 212717003170 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 212717003171 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 212717003172 shikimate binding site; other site 212717003173 NAD(P) binding site [chemical binding]; other site 212717003174 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 212717003175 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 212717003176 Walker A motif; other site 212717003177 ATP binding site [chemical binding]; other site 212717003178 Walker B motif; other site 212717003179 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 212717003180 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 212717003181 DXD motif; other site 212717003182 cell division protein FtsA; Region: ftsA; TIGR01174 212717003183 Cell division protein FtsA; Region: FtsA; smart00842 212717003184 Cell division protein FtsA; Region: FtsA; pfam14450 212717003185 cell division protein FtsZ; Validated; Region: PRK09330 212717003186 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 212717003187 nucleotide binding site [chemical binding]; other site 212717003188 SulA interaction site; other site 212717003189 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 212717003190 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 212717003191 sporulation sigma factor SigE; Reviewed; Region: PRK08301 212717003192 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 212717003193 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 212717003194 DNA binding residues [nucleotide binding] 212717003195 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 212717003196 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 212717003197 DNA binding residues [nucleotide binding] 212717003198 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 212717003199 ATP cone domain; Region: ATP-cone; pfam03477 212717003200 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 212717003201 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 212717003202 active site 212717003203 phosphorylation site [posttranslational modification] 212717003204 intermolecular recognition site; other site 212717003205 dimerization interface [polypeptide binding]; other site 212717003206 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 212717003207 DNA binding site [nucleotide binding] 212717003208 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 212717003209 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 212717003210 dimerization interface [polypeptide binding]; other site 212717003211 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 212717003212 PAS domain; Region: PAS; smart00091 212717003213 putative active site [active] 212717003214 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 212717003215 dimer interface [polypeptide binding]; other site 212717003216 phosphorylation site [posttranslational modification] 212717003217 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 212717003218 ATP binding site [chemical binding]; other site 212717003219 Mg2+ binding site [ion binding]; other site 212717003220 G-X-G motif; other site 212717003221 PBP superfamily domain; Region: PBP_like_2; cl17296 212717003222 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 212717003223 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 212717003224 dimer interface [polypeptide binding]; other site 212717003225 conserved gate region; other site 212717003226 putative PBP binding loops; other site 212717003227 ABC-ATPase subunit interface; other site 212717003228 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 212717003229 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 212717003230 dimer interface [polypeptide binding]; other site 212717003231 conserved gate region; other site 212717003232 putative PBP binding loops; other site 212717003233 ABC-ATPase subunit interface; other site 212717003234 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 212717003235 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 212717003236 Walker A/P-loop; other site 212717003237 ATP binding site [chemical binding]; other site 212717003238 Q-loop/lid; other site 212717003239 ABC transporter signature motif; other site 212717003240 Walker B; other site 212717003241 D-loop; other site 212717003242 H-loop/switch region; other site 212717003243 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 212717003244 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 212717003245 Protein of unknown function (DUF512); Region: DUF512; pfam04459 212717003246 GTP-binding protein Der; Reviewed; Region: PRK00093 212717003247 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 212717003248 G1 box; other site 212717003249 GTP/Mg2+ binding site [chemical binding]; other site 212717003250 Switch I region; other site 212717003251 G2 box; other site 212717003252 Switch II region; other site 212717003253 G3 box; other site 212717003254 G4 box; other site 212717003255 G5 box; other site 212717003256 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 212717003257 G1 box; other site 212717003258 GTP/Mg2+ binding site [chemical binding]; other site 212717003259 Switch I region; other site 212717003260 G2 box; other site 212717003261 G3 box; other site 212717003262 Switch II region; other site 212717003263 G4 box; other site 212717003264 G5 box; other site 212717003265 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 212717003266 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 212717003267 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 212717003268 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 212717003269 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 212717003270 Integrase core domain; Region: rve; pfam00665 212717003271 Integrase core domain; Region: rve_3; pfam13683 212717003272 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 212717003273 CRISPR/Cas system-associated protein Cas8a1; Region: Cas8a1_I-A; cd09744 212717003274 CRISPR-associated protein Csx8 (Cas_Csx8); Region: Cas_Csx8; pfam09657 212717003275 CRISPR-associated autoregulator DevR family; Region: cas_MJ0381; TIGR01875 212717003276 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cd09687 212717003277 CRISPR-associated protein Cas5, N-terminal domain; Region: CRISPR_cas5; TIGR02593 212717003278 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 212717003279 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 212717003280 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 212717003281 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 212717003282 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 212717003283 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 212717003284 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 212717003285 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 212717003286 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 212717003287 TAP-like protein; Region: Abhydrolase_4; pfam08386 212717003288 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 212717003289 Homoserine O-succinyltransferase; Region: HTS; pfam04204 212717003290 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 212717003291 proposed active site lysine [active] 212717003292 conserved cys residue [active] 212717003293 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 212717003294 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 212717003295 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 212717003296 homodimer interface [polypeptide binding]; other site 212717003297 substrate-cofactor binding pocket; other site 212717003298 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212717003299 catalytic residue [active] 212717003300 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 212717003301 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 212717003302 dimer interface [polypeptide binding]; other site 212717003303 putative CheW interface [polypeptide binding]; other site 212717003304 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 212717003305 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 212717003306 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 212717003307 ACS interaction site; other site 212717003308 CODH interaction site; other site 212717003309 cubane metal cluster (B-cluster) [ion binding]; other site 212717003310 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 212717003311 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 212717003312 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 212717003313 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 212717003314 putative active site [active] 212717003315 putative metal binding site [ion binding]; other site 212717003316 Transposase IS200 like; Region: Y1_Tnp; pfam01797 212717003317 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; cl07055 212717003318 DnaA box-binding interface [nucleotide binding]; other site 212717003319 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 212717003320 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 212717003321 PYR/PP interface [polypeptide binding]; other site 212717003322 TPP binding site [chemical binding]; other site 212717003323 dimer interface [polypeptide binding]; other site 212717003324 substrate binding site [chemical binding]; other site 212717003325 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 212717003326 Domain of unknown function; Region: EKR; pfam10371 212717003327 4Fe-4S binding domain; Region: Fer4_6; pfam12837 212717003328 4Fe-4S binding domain; Region: Fer4; pfam00037 212717003329 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 212717003330 TPP-binding site [chemical binding]; other site 212717003331 dimer interface [polypeptide binding]; other site 212717003332 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 212717003333 putative metal binding site [ion binding]; other site 212717003334 putative dimer interface [polypeptide binding]; other site 212717003335 Domain of unknown function (DUF4300); Region: DUF4300; pfam14133 212717003336 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 212717003337 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717003338 Walker A/P-loop; other site 212717003339 ATP binding site [chemical binding]; other site 212717003340 Q-loop/lid; other site 212717003341 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 212717003342 ABC transporter signature motif; other site 212717003343 Walker B; other site 212717003344 D-loop; other site 212717003345 ABC transporter; Region: ABC_tran_2; pfam12848 212717003346 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 212717003347 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 212717003348 YcxB-like protein; Region: YcxB; pfam14317 212717003349 Radical SAM superfamily; Region: Radical_SAM; pfam04055 212717003350 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 212717003351 FeS/SAM binding site; other site 212717003352 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 212717003353 Coenzyme A binding pocket [chemical binding]; other site 212717003354 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 212717003355 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 212717003356 DNA binding residues [nucleotide binding] 212717003357 dimer interface [polypeptide binding]; other site 212717003358 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 212717003359 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt; cl00231 212717003360 ATP binding site [chemical binding]; other site 212717003361 active site 212717003362 substrate binding site [chemical binding]; other site 212717003363 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 212717003364 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 212717003365 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 212717003366 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 212717003367 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 212717003368 Major Facilitator Superfamily; Region: MFS_1; pfam07690 212717003369 putative substrate translocation pore; other site 212717003370 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 212717003371 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 212717003372 Sulphur transport; Region: Sulf_transp; pfam04143 212717003373 putative inner membrane protein; Provisional; Region: PRK11099 212717003374 Transcriptional regulator [Transcription]; Region: LysR; COG0583 212717003375 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 212717003376 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 212717003377 putative dimerization interface [polypeptide binding]; other site 212717003378 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 212717003379 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 212717003380 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 212717003381 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 212717003382 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 212717003383 active site residue [active] 212717003384 putative inner membrane protein; Provisional; Region: PRK11099 212717003385 Sulphur transport; Region: Sulf_transp; pfam04143 212717003386 Sulphur transport; Region: Sulf_transp; pfam04143 212717003387 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 212717003388 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 212717003389 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 212717003390 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 212717003391 active site 212717003392 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 212717003393 ArsC family; Region: ArsC; pfam03960 212717003394 putative ArsC-like catalytic residues; other site 212717003395 putative TRX-like catalytic residues [active] 212717003396 Rubrerythrin [Energy production and conversion]; Region: COG1592 212717003397 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 212717003398 binuclear metal center [ion binding]; other site 212717003399 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 212717003400 iron binding site [ion binding]; other site 212717003401 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 212717003402 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 212717003403 Domain of unknown function (DUF348); Region: DUF348; pfam03990 212717003404 Domain of unknown function (DUF348); Region: DUF348; pfam03990 212717003405 G5 domain; Region: G5; pfam07501 212717003406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 212717003407 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 212717003408 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 212717003409 putative active site [active] 212717003410 putative metal binding site [ion binding]; other site 212717003411 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 212717003412 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 212717003413 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 212717003414 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 212717003415 Coenzyme A binding pocket [chemical binding]; other site 212717003416 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 212717003417 Na2 binding site [ion binding]; other site 212717003418 putative substrate binding site 1 [chemical binding]; other site 212717003419 Na binding site 1 [ion binding]; other site 212717003420 putative substrate binding site 2 [chemical binding]; other site 212717003421 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 212717003422 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 212717003423 Cell surface protein [Cell envelope biogenesis, outer membrane]; Region: COG5386 212717003424 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 212717003425 heme-binding site [chemical binding]; other site 212717003426 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 212717003427 heme-binding site [chemical binding]; other site 212717003428 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 212717003429 heme-binding site [chemical binding]; other site 212717003430 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 212717003431 heme-binding site [chemical binding]; other site 212717003432 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 212717003433 heme-binding site [chemical binding]; other site 212717003434 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 212717003435 heme-binding site [chemical binding]; other site 212717003436 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 212717003437 heme-binding site [chemical binding]; other site 212717003438 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 212717003439 heme-binding site [chemical binding]; other site 212717003440 heme ABC transporter, heme-binding protein isdE; Region: IsdE; TIGR03659 212717003441 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 212717003442 putative ligand binding residues [chemical binding]; other site 212717003443 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 212717003444 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 212717003445 ABC-ATPase subunit interface; other site 212717003446 dimer interface [polypeptide binding]; other site 212717003447 putative PBP binding regions; other site 212717003448 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 212717003449 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 212717003450 Walker A/P-loop; other site 212717003451 ATP binding site [chemical binding]; other site 212717003452 Q-loop/lid; other site 212717003453 ABC transporter signature motif; other site 212717003454 Walker B; other site 212717003455 D-loop; other site 212717003456 H-loop/switch region; other site 212717003457 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_5; cd06166 212717003458 active site 212717003459 catalytic site [active] 212717003460 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 212717003461 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 212717003462 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717003463 Walker A/P-loop; other site 212717003464 ATP binding site [chemical binding]; other site 212717003465 Q-loop/lid; other site 212717003466 ABC transporter signature motif; other site 212717003467 Walker B; other site 212717003468 D-loop; other site 212717003469 H-loop/switch region; other site 212717003470 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 212717003471 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 212717003472 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717003473 Walker A/P-loop; other site 212717003474 ATP binding site [chemical binding]; other site 212717003475 Q-loop/lid; other site 212717003476 ABC transporter signature motif; other site 212717003477 Walker B; other site 212717003478 D-loop; other site 212717003479 H-loop/switch region; other site 212717003480 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717003481 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717003482 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717003483 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 212717003484 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 212717003485 Zn2+ binding site [ion binding]; other site 212717003486 Mg2+ binding site [ion binding]; other site 212717003487 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 212717003488 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 212717003489 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 212717003490 active site 212717003491 NTP binding site [chemical binding]; other site 212717003492 metal binding triad [ion binding]; metal-binding site 212717003493 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 212717003494 HD domain; Region: HD; pfam01966 212717003495 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 212717003496 Transposase IS200 like; Region: Y1_Tnp; pfam01797 212717003497 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 212717003498 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 212717003499 G1 box; other site 212717003500 GTP/Mg2+ binding site [chemical binding]; other site 212717003501 Switch I region; other site 212717003502 G2 box; other site 212717003503 G3 box; other site 212717003504 Switch II region; other site 212717003505 G4 box; other site 212717003506 G5 box; other site 212717003507 Nucleoside recognition; Region: Gate; pfam07670 212717003508 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 212717003509 Nucleoside recognition; Region: Gate; pfam07670 212717003510 putative septicolysin, cholesterol-dependent cytolysin family and related proteins; Region: septicolysin_like; cd12208 212717003511 oligomer interface [polypeptide binding]; other site 212717003512 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 212717003513 trimer interface [polypeptide binding]; other site 212717003514 putative Zn binding site [ion binding]; other site 212717003515 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 212717003516 trimer interface [polypeptide binding]; other site 212717003517 active site 212717003518 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 212717003519 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 212717003520 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 212717003521 dimerization interface [polypeptide binding]; other site 212717003522 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 212717003523 dimer interface [polypeptide binding]; other site 212717003524 putative CheW interface [polypeptide binding]; other site 212717003525 Transcriptional regulator [Transcription]; Region: LysR; COG0583 212717003526 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 212717003527 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 212717003528 putative dimerization interface [polypeptide binding]; other site 212717003529 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 212717003530 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 212717003531 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 212717003532 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 212717003533 hypothetical protein; Provisional; Region: PRK11820 212717003534 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 212717003535 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 212717003536 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 212717003537 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 212717003538 catalytic site [active] 212717003539 G-X2-G-X-G-K; other site 212717003540 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 212717003541 Flavoprotein; Region: Flavoprotein; pfam02441 212717003542 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 212717003543 primosome assembly protein PriA; Validated; Region: PRK05580 212717003544 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 212717003545 ATP binding site [chemical binding]; other site 212717003546 putative Mg++ binding site [ion binding]; other site 212717003547 FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1; Region: FYVE; cl17764 212717003548 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 212717003549 ATP-binding site [chemical binding]; other site 212717003550 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 212717003551 active site 212717003552 catalytic residues [active] 212717003553 metal binding site [ion binding]; metal-binding site 212717003554 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 212717003555 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 212717003556 putative active site [active] 212717003557 substrate binding site [chemical binding]; other site 212717003558 putative cosubstrate binding site; other site 212717003559 catalytic site [active] 212717003560 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 212717003561 substrate binding site [chemical binding]; other site 212717003562 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 212717003563 16S rRNA methyltransferase B; Provisional; Region: PRK14902 212717003564 NusB family; Region: NusB; pfam01029 212717003565 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 212717003566 S-adenosylmethionine binding site [chemical binding]; other site 212717003567 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 212717003568 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 212717003569 FeS/SAM binding site; other site 212717003570 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 212717003571 Protein phosphatase 2C; Region: PP2C; pfam00481 212717003572 active site 212717003573 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 212717003574 Catalytic domain of Protein Kinases; Region: PKc; cd00180 212717003575 active site 212717003576 ATP binding site [chemical binding]; other site 212717003577 substrate binding site [chemical binding]; other site 212717003578 activation loop (A-loop); other site 212717003579 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 212717003580 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 212717003581 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 212717003582 GTPase RsgA; Reviewed; Region: PRK00098 212717003583 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 212717003584 RNA binding site [nucleotide binding]; other site 212717003585 homodimer interface [polypeptide binding]; other site 212717003586 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 212717003587 GTPase/Zn-binding domain interface [polypeptide binding]; other site 212717003588 GTP/Mg2+ binding site [chemical binding]; other site 212717003589 G4 box; other site 212717003590 G5 box; other site 212717003591 G1 box; other site 212717003592 Switch I region; other site 212717003593 G2 box; other site 212717003594 G3 box; other site 212717003595 Switch II region; other site 212717003596 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 212717003597 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 212717003598 substrate binding site [chemical binding]; other site 212717003599 hexamer interface [polypeptide binding]; other site 212717003600 metal binding site [ion binding]; metal-binding site 212717003601 Thiamine pyrophosphokinase; Region: TPK; cd07995 212717003602 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 212717003603 active site 212717003604 dimerization interface [polypeptide binding]; other site 212717003605 thiamine binding site [chemical binding]; other site 212717003606 Asp23 family; Region: Asp23; pfam03780 212717003607 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 212717003608 DAK2 domain; Region: Dak2; pfam02734 212717003609 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 212717003610 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 212717003611 ssDNA binding site; other site 212717003612 generic binding surface II; other site 212717003613 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 212717003614 ATP binding site [chemical binding]; other site 212717003615 putative Mg++ binding site [ion binding]; other site 212717003616 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 212717003617 nucleotide binding region [chemical binding]; other site 212717003618 ATP-binding site [chemical binding]; other site 212717003619 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 212717003620 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 212717003621 S-adenosylmethionine binding site [chemical binding]; other site 212717003622 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 212717003623 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 212717003624 active site 212717003625 (T/H)XGH motif; other site 212717003626 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 212717003627 Nucleoside recognition; Region: Gate; pfam07670 212717003628 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 212717003629 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 212717003630 hypothetical protein; Provisional; Region: PRK13670 212717003631 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 212717003632 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 212717003633 propionate/acetate kinase; Provisional; Region: PRK12379 212717003634 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 212717003635 putative phosphate acyltransferase; Provisional; Region: PRK05331 212717003636 ribonuclease III; Reviewed; Region: rnc; PRK00102 212717003637 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 212717003638 dimerization interface [polypeptide binding]; other site 212717003639 active site 212717003640 metal binding site [ion binding]; metal-binding site 212717003641 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 212717003642 dsRNA binding site [nucleotide binding]; other site 212717003643 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 212717003644 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 212717003645 FeS/SAM binding site; other site 212717003646 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 212717003647 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 212717003648 Walker A/P-loop; other site 212717003649 ATP binding site [chemical binding]; other site 212717003650 Q-loop/lid; other site 212717003651 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 212717003652 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 212717003653 ABC transporter signature motif; other site 212717003654 Walker B; other site 212717003655 D-loop; other site 212717003656 H-loop/switch region; other site 212717003657 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 212717003658 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 212717003659 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 212717003660 P loop; other site 212717003661 GTP binding site [chemical binding]; other site 212717003662 putative DNA-binding protein; Validated; Region: PRK00118 212717003663 signal recognition particle protein; Provisional; Region: PRK10867 212717003664 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 212717003665 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 212717003666 P loop; other site 212717003667 GTP binding site [chemical binding]; other site 212717003668 Signal peptide binding domain; Region: SRP_SPB; pfam02978 212717003669 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 212717003670 RimM N-terminal domain; Region: RimM; pfam01782 212717003671 PRC-barrel domain; Region: PRC; pfam05239 212717003672 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 212717003673 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 212717003674 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 212717003675 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 212717003676 Catalytic site [active] 212717003677 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 212717003678 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 212717003679 GTP/Mg2+ binding site [chemical binding]; other site 212717003680 G4 box; other site 212717003681 G5 box; other site 212717003682 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 212717003683 G1 box; other site 212717003684 G1 box; other site 212717003685 GTP/Mg2+ binding site [chemical binding]; other site 212717003686 Switch I region; other site 212717003687 G2 box; other site 212717003688 G2 box; other site 212717003689 G3 box; other site 212717003690 G3 box; other site 212717003691 Switch II region; other site 212717003692 Switch II region; other site 212717003693 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 212717003694 RNA/DNA hybrid binding site [nucleotide binding]; other site 212717003695 active site 212717003696 hypothetical protein; Reviewed; Region: PRK12497 212717003697 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 212717003698 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 212717003699 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 212717003700 Walker A motif; other site 212717003701 ATP binding site [chemical binding]; other site 212717003702 Walker B motif; other site 212717003703 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 212717003704 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 212717003705 DNA protecting protein DprA; Region: dprA; TIGR00732 212717003706 DNA topoisomerase I; Validated; Region: PRK05582 212717003707 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 212717003708 active site 212717003709 interdomain interaction site; other site 212717003710 putative metal-binding site [ion binding]; other site 212717003711 nucleotide binding site [chemical binding]; other site 212717003712 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 212717003713 domain I; other site 212717003714 DNA binding groove [nucleotide binding] 212717003715 phosphate binding site [ion binding]; other site 212717003716 domain II; other site 212717003717 domain III; other site 212717003718 nucleotide binding site [chemical binding]; other site 212717003719 catalytic site [active] 212717003720 domain IV; other site 212717003721 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 212717003722 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 212717003723 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 212717003724 transcriptional repressor CodY; Validated; Region: PRK04158 212717003725 CodY GAF-like domain; Region: CodY; pfam06018 212717003726 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 212717003727 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 212717003728 rRNA interaction site [nucleotide binding]; other site 212717003729 S8 interaction site; other site 212717003730 putative laminin-1 binding site; other site 212717003731 elongation factor Ts; Provisional; Region: tsf; PRK09377 212717003732 UBA/TS-N domain; Region: UBA; pfam00627 212717003733 Elongation factor TS; Region: EF_TS; pfam00889 212717003734 Elongation factor TS; Region: EF_TS; pfam00889 212717003735 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 212717003736 putative nucleotide binding site [chemical binding]; other site 212717003737 uridine monophosphate binding site [chemical binding]; other site 212717003738 homohexameric interface [polypeptide binding]; other site 212717003739 ribosome recycling factor; Reviewed; Region: frr; PRK00083 212717003740 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 212717003741 hinge region; other site 212717003742 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 212717003743 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 212717003744 catalytic residue [active] 212717003745 putative FPP diphosphate binding site; other site 212717003746 putative FPP binding hydrophobic cleft; other site 212717003747 dimer interface [polypeptide binding]; other site 212717003748 putative IPP diphosphate binding site; other site 212717003749 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 212717003750 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 212717003751 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 212717003752 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 212717003753 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 212717003754 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 212717003755 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 212717003756 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 212717003757 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 212717003758 active site 212717003759 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 212717003760 protein binding site [polypeptide binding]; other site 212717003761 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 212717003762 putative substrate binding region [chemical binding]; other site 212717003763 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 212717003764 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 212717003765 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 212717003766 DNA polymerase III PolC; Validated; Region: polC; PRK00448 212717003767 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 212717003768 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 212717003769 generic binding surface II; other site 212717003770 generic binding surface I; other site 212717003771 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 212717003772 active site 212717003773 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 212717003774 active site 212717003775 catalytic site [active] 212717003776 substrate binding site [chemical binding]; other site 212717003777 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 212717003778 ribosome maturation protein RimP; Reviewed; Region: PRK00092 212717003779 Sm and related proteins; Region: Sm_like; cl00259 212717003780 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 212717003781 putative oligomer interface [polypeptide binding]; other site 212717003782 putative RNA binding site [nucleotide binding]; other site 212717003783 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 212717003784 NusA N-terminal domain; Region: NusA_N; pfam08529 212717003785 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 212717003786 RNA binding site [nucleotide binding]; other site 212717003787 homodimer interface [polypeptide binding]; other site 212717003788 NusA-like KH domain; Region: KH_5; pfam13184 212717003789 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 212717003790 G-X-X-G motif; other site 212717003791 ribosomal protein L7Ae family protein; Provisional; Region: PRK05583 212717003792 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 212717003793 translation initiation factor IF-2; Region: IF-2; TIGR00487 212717003794 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 212717003795 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 212717003796 G1 box; other site 212717003797 putative GEF interaction site [polypeptide binding]; other site 212717003798 GTP/Mg2+ binding site [chemical binding]; other site 212717003799 Switch I region; other site 212717003800 G2 box; other site 212717003801 G3 box; other site 212717003802 Switch II region; other site 212717003803 G4 box; other site 212717003804 G5 box; other site 212717003805 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 212717003806 Translation-initiation factor 2; Region: IF-2; pfam11987 212717003807 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 212717003808 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 212717003809 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 212717003810 DHH family; Region: DHH; pfam01368 212717003811 DHHA1 domain; Region: DHHA1; pfam02272 212717003812 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 212717003813 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 212717003814 RNA binding site [nucleotide binding]; other site 212717003815 active site 212717003816 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 212717003817 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 212717003818 active site 212717003819 Riboflavin kinase; Region: Flavokinase; pfam01687 212717003820 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 212717003821 16S/18S rRNA binding site [nucleotide binding]; other site 212717003822 S13e-L30e interaction site [polypeptide binding]; other site 212717003823 25S rRNA binding site [nucleotide binding]; other site 212717003824 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 212717003825 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 212717003826 RNase E interface [polypeptide binding]; other site 212717003827 trimer interface [polypeptide binding]; other site 212717003828 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 212717003829 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 212717003830 RNase E interface [polypeptide binding]; other site 212717003831 trimer interface [polypeptide binding]; other site 212717003832 active site 212717003833 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 212717003834 putative nucleic acid binding region [nucleotide binding]; other site 212717003835 G-X-X-G motif; other site 212717003836 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 212717003837 RNA binding site [nucleotide binding]; other site 212717003838 domain interface; other site 212717003839 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 212717003840 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 212717003841 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 212717003842 aspartate kinase I; Reviewed; Region: PRK08210 212717003843 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 212717003844 nucleotide binding site [chemical binding]; other site 212717003845 substrate binding site [chemical binding]; other site 212717003846 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 212717003847 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 212717003848 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 212717003849 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 212717003850 active site 212717003851 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 212717003852 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 212717003853 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 212717003854 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 212717003855 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 212717003856 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 212717003857 FeS/SAM binding site; other site 212717003858 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 212717003859 recombinase A; Provisional; Region: recA; PRK09354 212717003860 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 212717003861 hexamer interface [polypeptide binding]; other site 212717003862 Walker A motif; other site 212717003863 ATP binding site [chemical binding]; other site 212717003864 Walker B motif; other site 212717003865 phosphodiesterase; Provisional; Region: PRK12704 212717003866 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 212717003867 Zn2+ binding site [ion binding]; other site 212717003868 Mg2+ binding site [ion binding]; other site 212717003869 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 212717003870 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 212717003871 aspartate aminotransferase; Provisional; Region: PRK05764 212717003872 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 212717003873 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212717003874 homodimer interface [polypeptide binding]; other site 212717003875 catalytic residue [active] 212717003876 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 212717003877 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 212717003878 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 212717003879 NAD(P) binding site [chemical binding]; other site 212717003880 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 212717003881 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 212717003882 active site 212717003883 DNA binding site [nucleotide binding] 212717003884 Int/Topo IB signature motif; other site 212717003885 LexA repressor; Validated; Region: PRK00215 212717003886 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 212717003887 putative DNA binding site [nucleotide binding]; other site 212717003888 putative Zn2+ binding site [ion binding]; other site 212717003889 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 212717003890 Catalytic site [active] 212717003891 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 212717003892 Aluminium resistance protein; Region: Alum_res; pfam06838 212717003893 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 212717003894 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 212717003895 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 212717003896 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 212717003897 Mg2+ binding site [ion binding]; other site 212717003898 G-X-G motif; other site 212717003899 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 212717003900 ATP binding site [chemical binding]; other site 212717003901 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 212717003902 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 212717003903 MutS domain I; Region: MutS_I; pfam01624 212717003904 MutS domain II; Region: MutS_II; pfam05188 212717003905 MutS domain III; Region: MutS_III; pfam05192 212717003906 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 212717003907 Walker A/P-loop; other site 212717003908 ATP binding site [chemical binding]; other site 212717003909 Q-loop/lid; other site 212717003910 ABC transporter signature motif; other site 212717003911 Walker B; other site 212717003912 D-loop; other site 212717003913 H-loop/switch region; other site 212717003914 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 212717003915 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 212717003916 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 212717003917 FeS/SAM binding site; other site 212717003918 TRAM domain; Region: TRAM; pfam01938 212717003919 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 212717003920 Cache domain; Region: Cache_1; pfam02743 212717003921 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 212717003922 dimerization interface [polypeptide binding]; other site 212717003923 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 212717003924 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 212717003925 dimer interface [polypeptide binding]; other site 212717003926 putative CheW interface [polypeptide binding]; other site 212717003927 aspartate aminotransferase; Provisional; Region: PRK07568 212717003928 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 212717003929 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212717003930 homodimer interface [polypeptide binding]; other site 212717003931 catalytic residue [active] 212717003932 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 212717003933 Coenzyme A binding pocket [chemical binding]; other site 212717003934 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 212717003935 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 212717003936 S-adenosylmethionine decarboxylase proenzyme; Provisional; Region: PRK03124 212717003937 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 212717003938 LytB protein; Region: LYTB; cl00507 212717003939 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 212717003940 RNA binding site [nucleotide binding]; other site 212717003941 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 212717003942 RNA binding site [nucleotide binding]; other site 212717003943 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 212717003944 RNA binding site [nucleotide binding]; other site 212717003945 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 212717003946 RNA binding site [nucleotide binding]; other site 212717003947 domain interface; other site 212717003948 cytidylate kinase; Provisional; Region: cmk; PRK00023 212717003949 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 212717003950 CMP-binding site; other site 212717003951 The sites determining sugar specificity; other site 212717003952 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 212717003953 homotrimer interaction site [polypeptide binding]; other site 212717003954 active site 212717003955 HI0933-like protein; Region: HI0933_like; pfam03486 212717003956 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 212717003957 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 212717003958 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 212717003959 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 212717003960 putative active site [active] 212717003961 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 212717003962 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 212717003963 RNA binding surface [nucleotide binding]; other site 212717003964 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 212717003965 active site 212717003966 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 212717003967 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 212717003968 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 212717003969 DXD motif; other site 212717003970 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 212717003971 putative FMN binding site [chemical binding]; other site 212717003972 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 212717003973 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 212717003974 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 212717003975 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 212717003976 G1 box; other site 212717003977 GTP/Mg2+ binding site [chemical binding]; other site 212717003978 Switch I region; other site 212717003979 G2 box; other site 212717003980 Switch II region; other site 212717003981 G3 box; other site 212717003982 G4 box; other site 212717003983 G5 box; other site 212717003984 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 212717003985 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 212717003986 FeS/SAM binding site; other site 212717003987 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 212717003988 biotin synthase; Provisional; Region: PRK07094 212717003989 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 212717003990 FeS/SAM binding site; other site 212717003991 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 212717003992 DDE superfamily endonuclease; Region: DDE_5; cl17874 212717003993 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 212717003994 hexamer interface [polypeptide binding]; other site 212717003995 RNA binding site [nucleotide binding]; other site 212717003996 Histidine-zinc binding site [chemical binding]; other site 212717003997 Putative amidase domain; Region: Amidase_6; pfam12671 212717003998 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 212717003999 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 212717004000 TPP-binding site [chemical binding]; other site 212717004001 dimer interface [polypeptide binding]; other site 212717004002 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 212717004003 PYR/PP interface [polypeptide binding]; other site 212717004004 dimer interface [polypeptide binding]; other site 212717004005 TPP binding site [chemical binding]; other site 212717004006 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 212717004007 Uncharacterized conserved protein [Function unknown]; Region: COG1284 212717004008 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 212717004009 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 212717004010 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 212717004011 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 212717004012 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 212717004013 metal ion-dependent adhesion site (MIDAS); other site 212717004014 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 212717004015 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 212717004016 Walker A motif; other site 212717004017 ATP binding site [chemical binding]; other site 212717004018 Walker B motif; other site 212717004019 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 212717004020 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 212717004021 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 212717004022 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 212717004023 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 212717004024 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 212717004025 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 212717004026 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 212717004027 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 212717004028 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 212717004029 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 212717004030 dimer interface [polypeptide binding]; other site 212717004031 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212717004032 catalytic residue [active] 212717004033 Predicted transcriptional regulator [Transcription]; Region: COG1959 212717004034 Transcriptional regulator; Region: Rrf2; pfam02082 212717004035 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 212717004036 Domain of unknown function DUF; Region: DUF204; pfam02659 212717004037 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 212717004038 dinuclear metal binding motif [ion binding]; other site 212717004039 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 212717004040 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 212717004041 MgtE intracellular N domain; Region: MgtE_N; smart00924 212717004042 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 212717004043 Divalent cation transporter; Region: MgtE; pfam01769 212717004044 Uncharacterized conserved protein [Function unknown]; Region: COG1751 212717004045 Pyruvate kinase, alpha/beta domain; Region: PK_C; pfam02887 212717004046 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 212717004047 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 212717004048 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 212717004049 dimer interface [polypeptide binding]; other site 212717004050 conserved gate region; other site 212717004051 ABC-ATPase subunit interface; other site 212717004052 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 212717004053 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 212717004054 Walker A/P-loop; other site 212717004055 ATP binding site [chemical binding]; other site 212717004056 Q-loop/lid; other site 212717004057 ABC transporter signature motif; other site 212717004058 Walker B; other site 212717004059 D-loop; other site 212717004060 H-loop/switch region; other site 212717004061 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 212717004062 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 212717004063 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 212717004064 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 212717004065 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717004066 Walker A/P-loop; other site 212717004067 ATP binding site [chemical binding]; other site 212717004068 Q-loop/lid; other site 212717004069 ABC transporter signature motif; other site 212717004070 Walker B; other site 212717004071 D-loop; other site 212717004072 H-loop/switch region; other site 212717004073 Tropomyosin like; Region: Tropomyosin_1; pfam12718 212717004074 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 212717004075 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 212717004076 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 212717004077 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 212717004078 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 212717004079 catalytic residue [active] 212717004080 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 212717004081 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 212717004082 catalytic residue [active] 212717004083 putative FPP diphosphate binding site; other site 212717004084 putative FPP binding hydrophobic cleft; other site 212717004085 dimer interface [polypeptide binding]; other site 212717004086 putative IPP diphosphate binding site; other site 212717004087 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 212717004088 Helix-turn-helix domain; Region: HTH_18; pfam12833 212717004089 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 212717004090 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 212717004091 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 212717004092 putative efflux protein, MATE family; Region: matE; TIGR00797 212717004093 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717004094 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717004095 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717004096 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 212717004097 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 212717004098 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 212717004099 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 212717004100 putative catalytic cysteine [active] 212717004101 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 212717004102 putative active site [active] 212717004103 metal binding site [ion binding]; metal-binding site 212717004104 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 212717004105 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 212717004106 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 212717004107 nucleotide binding region [chemical binding]; other site 212717004108 ATP-binding site [chemical binding]; other site 212717004109 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 212717004110 short chain dehydrogenase; Provisional; Region: PRK06701 212717004111 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 212717004112 NAD binding site [chemical binding]; other site 212717004113 metal binding site [ion binding]; metal-binding site 212717004114 active site 212717004115 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 212717004116 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 212717004117 Walker A/P-loop; other site 212717004118 ATP binding site [chemical binding]; other site 212717004119 Q-loop/lid; other site 212717004120 ABC transporter signature motif; other site 212717004121 Walker B; other site 212717004122 D-loop; other site 212717004123 H-loop/switch region; other site 212717004124 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 212717004125 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 212717004126 ABC-ATPase subunit interface; other site 212717004127 dimer interface [polypeptide binding]; other site 212717004128 putative PBP binding regions; other site 212717004129 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 212717004130 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 212717004131 intersubunit interface [polypeptide binding]; other site 212717004132 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 212717004133 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 212717004134 EamA-like transporter family; Region: EamA; pfam00892 212717004135 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 212717004136 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 212717004137 Walker A/P-loop; other site 212717004138 ATP binding site [chemical binding]; other site 212717004139 Q-loop/lid; other site 212717004140 ABC transporter signature motif; other site 212717004141 Walker B; other site 212717004142 D-loop; other site 212717004143 H-loop/switch region; other site 212717004144 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 212717004145 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 212717004146 Walker A/P-loop; other site 212717004147 ATP binding site [chemical binding]; other site 212717004148 Q-loop/lid; other site 212717004149 ABC transporter signature motif; other site 212717004150 Walker B; other site 212717004151 D-loop; other site 212717004152 H-loop/switch region; other site 212717004153 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 212717004154 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 212717004155 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 212717004156 dimer interface [polypeptide binding]; other site 212717004157 conserved gate region; other site 212717004158 putative PBP binding loops; other site 212717004159 ABC-ATPase subunit interface; other site 212717004160 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 212717004161 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 212717004162 dimer interface [polypeptide binding]; other site 212717004163 conserved gate region; other site 212717004164 putative PBP binding loops; other site 212717004165 ABC-ATPase subunit interface; other site 212717004166 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 212717004167 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_3; cd08490 212717004168 VanZ like family; Region: VanZ; pfam04892 212717004169 RDD family; Region: RDD; pfam06271 212717004170 hypothetical protein; Provisional; Region: PRK05802 212717004171 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 212717004172 FAD binding pocket [chemical binding]; other site 212717004173 FAD binding motif [chemical binding]; other site 212717004174 phosphate binding motif [ion binding]; other site 212717004175 beta-alpha-beta structure motif; other site 212717004176 NAD binding pocket [chemical binding]; other site 212717004177 Iron coordination center [ion binding]; other site 212717004178 Glucose inhibited division protein A; Region: GIDA; pfam01134 212717004179 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 212717004180 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 212717004181 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 212717004182 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 212717004183 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 212717004184 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 212717004185 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 212717004186 FAD binding site [chemical binding]; other site 212717004187 homotetramer interface [polypeptide binding]; other site 212717004188 substrate binding pocket [chemical binding]; other site 212717004189 catalytic base [active] 212717004190 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 212717004191 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 212717004192 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 212717004193 Rubredoxin; Region: Rubredoxin; pfam00301 212717004194 iron binding site [ion binding]; other site 212717004195 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 212717004196 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 212717004197 phosphopentomutase; Provisional; Region: PRK05362 212717004198 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 212717004199 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 212717004200 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 212717004201 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 212717004202 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 212717004203 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 212717004204 DNA-binding site [nucleotide binding]; DNA binding site 212717004205 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 212717004206 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 212717004207 dimer interface [polypeptide binding]; other site 212717004208 conserved gate region; other site 212717004209 putative PBP binding loops; other site 212717004210 ABC-ATPase subunit interface; other site 212717004211 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 212717004212 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 212717004213 substrate binding pocket [chemical binding]; other site 212717004214 membrane-bound complex binding site; other site 212717004215 hinge residues; other site 212717004216 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 212717004217 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 212717004218 Walker A/P-loop; other site 212717004219 ATP binding site [chemical binding]; other site 212717004220 Q-loop/lid; other site 212717004221 ABC transporter signature motif; other site 212717004222 Walker B; other site 212717004223 D-loop; other site 212717004224 H-loop/switch region; other site 212717004225 Macro domain, Appr-1"-pase_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...; Region: Macro_Appr_pase_like; cd02908 212717004226 putative ADP-ribose binding site [chemical binding]; other site 212717004227 putative active site [active] 212717004228 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 212717004229 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 212717004230 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 212717004231 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 212717004232 dimer interface [polypeptide binding]; other site 212717004233 conserved gate region; other site 212717004234 putative PBP binding loops; other site 212717004235 ABC-ATPase subunit interface; other site 212717004236 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 212717004237 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 212717004238 dimer interface [polypeptide binding]; other site 212717004239 conserved gate region; other site 212717004240 putative PBP binding loops; other site 212717004241 ABC-ATPase subunit interface; other site 212717004242 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 212717004243 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 212717004244 Walker A/P-loop; other site 212717004245 ATP binding site [chemical binding]; other site 212717004246 Q-loop/lid; other site 212717004247 ABC transporter signature motif; other site 212717004248 Walker B; other site 212717004249 D-loop; other site 212717004250 H-loop/switch region; other site 212717004251 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 212717004252 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 212717004253 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 212717004254 Walker A/P-loop; other site 212717004255 ATP binding site [chemical binding]; other site 212717004256 Q-loop/lid; other site 212717004257 ABC transporter signature motif; other site 212717004258 Walker B; other site 212717004259 D-loop; other site 212717004260 H-loop/switch region; other site 212717004261 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 212717004262 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 212717004263 S-adenosylmethionine binding site [chemical binding]; other site 212717004264 putative transposase OrfB; Reviewed; Region: PHA02517 212717004265 HTH-like domain; Region: HTH_21; pfam13276 212717004266 Integrase core domain; Region: rve; pfam00665 212717004267 Integrase core domain; Region: rve_2; pfam13333 212717004268 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 212717004269 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 212717004270 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 212717004271 Walker A/P-loop; other site 212717004272 ATP binding site [chemical binding]; other site 212717004273 Q-loop/lid; other site 212717004274 ABC transporter signature motif; other site 212717004275 Walker B; other site 212717004276 D-loop; other site 212717004277 H-loop/switch region; other site 212717004278 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 212717004279 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 212717004280 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717004281 Walker A/P-loop; other site 212717004282 ATP binding site [chemical binding]; other site 212717004283 Q-loop/lid; other site 212717004284 ABC transporter signature motif; other site 212717004285 Walker B; other site 212717004286 D-loop; other site 212717004287 H-loop/switch region; other site 212717004288 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 212717004289 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 212717004290 VanZ like family; Region: VanZ; pfam04892 212717004291 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 212717004292 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 212717004293 DNA binding site [nucleotide binding] 212717004294 active site 212717004295 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 212717004296 A new structural DNA glycosylase; Region: AlkD_like; cd06561 212717004297 active site 212717004298 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 212717004299 active site 212717004300 NTP binding site [chemical binding]; other site 212717004301 metal binding triad [ion binding]; metal-binding site 212717004302 antibiotic binding site [chemical binding]; other site 212717004303 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 212717004304 VanZ like family; Region: VanZ; pfam04892 212717004305 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 212717004306 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 212717004307 FtsX-like permease family; Region: FtsX; pfam02687 212717004308 FtsX-like permease family; Region: FtsX; pfam02687 212717004309 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 212717004310 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 212717004311 Walker A/P-loop; other site 212717004312 ATP binding site [chemical binding]; other site 212717004313 Q-loop/lid; other site 212717004314 ABC transporter signature motif; other site 212717004315 Walker B; other site 212717004316 D-loop; other site 212717004317 H-loop/switch region; other site 212717004318 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717004319 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 212717004320 dimer interface [polypeptide binding]; other site 212717004321 phosphorylation site [posttranslational modification] 212717004322 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 212717004323 ATP binding site [chemical binding]; other site 212717004324 Mg2+ binding site [ion binding]; other site 212717004325 G-X-G motif; other site 212717004326 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 212717004327 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 212717004328 active site 212717004329 phosphorylation site [posttranslational modification] 212717004330 intermolecular recognition site; other site 212717004331 dimerization interface [polypeptide binding]; other site 212717004332 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 212717004333 DNA binding site [nucleotide binding] 212717004334 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 212717004335 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 212717004336 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 212717004337 putative transporter; Provisional; Region: PRK11660 212717004338 Sulfate transporter family; Region: Sulfate_transp; pfam00916 212717004339 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 212717004340 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 212717004341 Chloramphenicol acetyltransferase; Region: CAT; smart01059 212717004342 CAAX protease self-immunity; Region: Abi; pfam02517 212717004343 Protein of unknown function (DUF1102); Region: DUF1102; pfam06510 212717004344 Predicted ATPase [General function prediction only]; Region: COG3910 212717004345 ATP-binding cassette domain of non-transporter proteins; Region: ABC_Class2; cd03227 212717004346 Walker A/P-loop; other site 212717004347 ATP binding site [chemical binding]; other site 212717004348 Q-loop/lid; other site 212717004349 ABC transporter signature motif; other site 212717004350 Walker B; other site 212717004351 D-loop; other site 212717004352 H-loop/switch region; other site 212717004353 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 212717004354 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 212717004355 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 212717004356 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 212717004357 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 212717004358 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 212717004359 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 212717004360 DNA binding residues [nucleotide binding] 212717004361 Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen...; Region: KU; cl02666 212717004362 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 212717004363 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 212717004364 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 212717004365 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 212717004366 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 212717004367 non-specific DNA binding site [nucleotide binding]; other site 212717004368 salt bridge; other site 212717004369 sequence-specific DNA binding site [nucleotide binding]; other site 212717004370 Cupin domain; Region: Cupin_2; cl17218 212717004371 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 212717004372 Propanediol utilisation protein PduL; Region: PduL; pfam06130 212717004373 Ubiquitin-like proteins; Region: UBQ; cl00155 212717004374 charged pocket; other site 212717004375 Propanediol utilisation protein PduL; Region: PduL; pfam06130 212717004376 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 212717004377 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 212717004378 putative catalytic cysteine [active] 212717004379 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 212717004380 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 212717004381 Hexamer interface [polypeptide binding]; other site 212717004382 Hexagonal pore residue; other site 212717004383 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 212717004384 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 212717004385 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 212717004386 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 212717004387 nucleotide binding site [chemical binding]; other site 212717004388 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 212717004389 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 212717004390 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 212717004391 G1 box; other site 212717004392 GTP/Mg2+ binding site [chemical binding]; other site 212717004393 G2 box; other site 212717004394 G3 box; other site 212717004395 Switch II region; other site 212717004396 G4 box; other site 212717004397 G5 box; other site 212717004398 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 212717004399 putative hexamer interface [polypeptide binding]; other site 212717004400 putative hexagonal pore; other site 212717004401 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 212717004402 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 212717004403 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 212717004404 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 212717004405 dimer interface [polypeptide binding]; other site 212717004406 active site 212717004407 glycine loop; other site 212717004408 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 212717004409 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 212717004410 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 212717004411 DNA binding residues [nucleotide binding] 212717004412 drug binding residues [chemical binding]; other site 212717004413 dimer interface [polypeptide binding]; other site 212717004414 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 212717004415 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 212717004416 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 212717004417 putative active site [active] 212717004418 metal binding site [ion binding]; metal-binding site 212717004419 RDD family; Region: RDD; pfam06271 212717004420 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 212717004421 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 212717004422 Ligand Binding Site [chemical binding]; other site 212717004423 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 212717004424 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 212717004425 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 212717004426 catalytic residue [active] 212717004427 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 212717004428 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 212717004429 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 212717004430 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 212717004431 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 212717004432 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 212717004433 CRISPR-associated protein Cas5, subtype I-B/HMARI; Region: cas_Cas5h; TIGR02592 212717004434 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-B; cd09692 212717004435 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 212717004436 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cd09691 212717004437 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 212717004438 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 212717004439 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 212717004440 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 212717004441 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; cl02713 212717004442 Putative amidase domain; Region: Amidase_6; pfam12671 212717004443 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 212717004444 active site triad [active] 212717004445 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 212717004446 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 212717004447 catalytic residue [active] 212717004448 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 212717004449 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 212717004450 catalytic residues [active] 212717004451 4Fe-4S binding domain; Region: Fer4_5; pfam12801 212717004452 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 212717004453 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 212717004454 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717004455 HAMP domain; Region: HAMP; pfam00672 212717004456 dimerization interface [polypeptide binding]; other site 212717004457 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 212717004458 dimer interface [polypeptide binding]; other site 212717004459 phosphorylation site [posttranslational modification] 212717004460 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 212717004461 ATP binding site [chemical binding]; other site 212717004462 Mg2+ binding site [ion binding]; other site 212717004463 G-X-G motif; other site 212717004464 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 212717004465 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 212717004466 active site 212717004467 phosphorylation site [posttranslational modification] 212717004468 intermolecular recognition site; other site 212717004469 dimerization interface [polypeptide binding]; other site 212717004470 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 212717004471 DNA binding site [nucleotide binding] 212717004472 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 212717004473 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 212717004474 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 212717004475 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 212717004476 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717004477 Walker A/P-loop; other site 212717004478 ATP binding site [chemical binding]; other site 212717004479 Q-loop/lid; other site 212717004480 ABC transporter signature motif; other site 212717004481 Walker B; other site 212717004482 D-loop; other site 212717004483 H-loop/switch region; other site 212717004484 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 212717004485 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 212717004486 dimer interface [polypeptide binding]; other site 212717004487 putative CheW interface [polypeptide binding]; other site 212717004488 FMN-binding domain; Region: FMN_bind; cl01081 212717004489 L-aspartate oxidase; Provisional; Region: PRK06175 212717004490 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 212717004491 heat shock protein 90; Provisional; Region: PRK05218 212717004492 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 212717004493 ATP binding site [chemical binding]; other site 212717004494 Mg2+ binding site [ion binding]; other site 212717004495 G-X-G motif; other site 212717004496 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 212717004497 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 212717004498 active site 212717004499 phosphorylation site [posttranslational modification] 212717004500 intermolecular recognition site; other site 212717004501 dimerization interface [polypeptide binding]; other site 212717004502 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 212717004503 DNA binding site [nucleotide binding] 212717004504 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 212717004505 dimerization interface [polypeptide binding]; other site 212717004506 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 212717004507 dimer interface [polypeptide binding]; other site 212717004508 phosphorylation site [posttranslational modification] 212717004509 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 212717004510 ATP binding site [chemical binding]; other site 212717004511 Mg2+ binding site [ion binding]; other site 212717004512 G-X-G motif; other site 212717004513 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717004514 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 212717004515 Walker A/P-loop; other site 212717004516 ATP binding site [chemical binding]; other site 212717004517 Q-loop/lid; other site 212717004518 ABC transporter signature motif; other site 212717004519 Walker B; other site 212717004520 D-loop; other site 212717004521 H-loop/switch region; other site 212717004522 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 212717004523 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 212717004524 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 212717004525 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 212717004526 ATP binding site [chemical binding]; other site 212717004527 Mg++ binding site [ion binding]; other site 212717004528 motif III; other site 212717004529 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 212717004530 nucleotide binding region [chemical binding]; other site 212717004531 ATP-binding site [chemical binding]; other site 212717004532 RNA recognition motif in Bacillus subtilis ATP-dependent RNA helicase YxiN and similar proteins; Region: RRM_BsYxiN_like; cd12500 212717004533 RNA binding site [nucleotide binding]; other site 212717004534 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 212717004535 Predicted secreted protein [Function unknown]; Region: COG4086 212717004536 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 212717004537 EamA-like transporter family; Region: EamA; pfam00892 212717004538 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 212717004539 EamA-like transporter family; Region: EamA; pfam00892 212717004540 NnaC (CMP-NeuNAc synthetase) _like subfamily of 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: NnaC_like; cd01841 212717004541 active site 212717004542 catalytic triad [active] 212717004543 oxyanion hole [active] 212717004544 Protein of unknown function DUF45; Region: DUF45; pfam01863 212717004545 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 212717004546 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 212717004547 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 212717004548 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 212717004549 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 212717004550 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 212717004551 dimer interface [polypeptide binding]; other site 212717004552 putative CheW interface [polypeptide binding]; other site 212717004553 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 212717004554 Na2 binding site [ion binding]; other site 212717004555 putative substrate binding site 1 [chemical binding]; other site 212717004556 Na binding site 1 [ion binding]; other site 212717004557 putative substrate binding site 2 [chemical binding]; other site 212717004558 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 212717004559 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 212717004560 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 212717004561 catalytic residue [active] 212717004562 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 212717004563 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 212717004564 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 212717004565 dimer interface [polypeptide binding]; other site 212717004566 putative CheW interface [polypeptide binding]; other site 212717004567 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 212717004568 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 212717004569 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 212717004570 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 212717004571 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 212717004572 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 212717004573 RNA binding site [nucleotide binding]; other site 212717004574 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 212717004575 RNA binding site [nucleotide binding]; other site 212717004576 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 212717004577 RNA binding site [nucleotide binding]; other site 212717004578 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 212717004579 RNA binding site [nucleotide binding]; other site 212717004580 domain interface; other site 212717004581 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; pfam09579 212717004582 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]; Region: COG4939 212717004583 FMN-binding domain; Region: FMN_bind; pfam04205 212717004584 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 212717004585 L-aspartate oxidase; Provisional; Region: PRK06175 212717004586 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 212717004587 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 212717004588 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 212717004589 active site 212717004590 phosphorylation site [posttranslational modification] 212717004591 intermolecular recognition site; other site 212717004592 dimerization interface [polypeptide binding]; other site 212717004593 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 212717004594 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 212717004595 putative active site [active] 212717004596 heme pocket [chemical binding]; other site 212717004597 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 212717004598 ATP binding site [chemical binding]; other site 212717004599 Mg2+ binding site [ion binding]; other site 212717004600 G-X-G motif; other site 212717004601 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 212717004602 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 212717004603 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 212717004604 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 212717004605 sporulation protein YtfJ; Region: spore_ytfJ; TIGR02874 212717004606 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 212717004607 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 212717004608 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 212717004609 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 212717004610 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 212717004611 purine nucleoside phosphorylase; Provisional; Region: PRK08202 212717004612 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 212717004613 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 212717004614 active site 212717004615 Int/Topo IB signature motif; other site 212717004616 stage II sporulation protein M; Region: spo_II_M; TIGR02831 212717004617 sporulation lipoprotein, YhcN/YlaJ family; Region: spore_YhcN_YlaJ; TIGR02898 212717004618 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 212717004619 Cache domain; Region: Cache_1; pfam02743 212717004620 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 212717004621 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 212717004622 dimerization interface [polypeptide binding]; other site 212717004623 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 212717004624 dimer interface [polypeptide binding]; other site 212717004625 putative CheW interface [polypeptide binding]; other site 212717004626 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 212717004627 active site 212717004628 metal binding site [ion binding]; metal-binding site 212717004629 Sporulation related domain; Region: SPOR; pfam05036 212717004630 CBP4; Region: CBP4; pfam07960 212717004631 Peptidase_G2, IMC autoproteolytic cleavage domain; Region: Peptidase_G2; pfam11962 212717004632 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 212717004633 Phage-related protein [Function unknown]; Region: COG4722 212717004634 Phage tail protein; Region: Sipho_tail; cl17486 212717004635 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 212717004636 Phage-related protein [Function unknown]; Region: COG5412 212717004637 membrane protein P6; Region: PHA01399 212717004638 Phage gp6-like head-tail connector protein; Region: Phage_connect_1; pfam05135 212717004639 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 212717004640 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 212717004641 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 212717004642 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 212717004643 Terminase-like family; Region: Terminase_6; pfam03237 212717004644 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 212717004645 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 212717004646 Presynaptic Site I dimer interface [polypeptide binding]; other site 212717004647 catalytic residues [active] 212717004648 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 212717004649 Synaptic Flat tetramer interface [polypeptide binding]; other site 212717004650 Synaptic Site I dimer interface [polypeptide binding]; other site 212717004651 DNA binding site [nucleotide binding] 212717004652 Helix-turn-helix domain of resolvase; Region: HTH_7; pfam02796 212717004653 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 212717004654 Winged helix-turn helix; Region: HTH_29; pfam13551 212717004655 DNA-binding interface [nucleotide binding]; DNA binding site 212717004656 BRO family, N-terminal domain; Region: Bro-N; smart01040 212717004657 Helix-turn-helix domain; Region: HTH_36; pfam13730 212717004658 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 212717004659 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 212717004660 active site 212717004661 DNA binding site [nucleotide binding] 212717004662 Int/Topo IB signature motif; other site 212717004663 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 212717004664 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 212717004665 active site 212717004666 phosphorylation site [posttranslational modification] 212717004667 intermolecular recognition site; other site 212717004668 dimerization interface [polypeptide binding]; other site 212717004669 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 212717004670 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 212717004671 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 212717004672 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 212717004673 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 212717004674 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 212717004675 Walker A/P-loop; other site 212717004676 ATP binding site [chemical binding]; other site 212717004677 Q-loop/lid; other site 212717004678 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 212717004679 ABC transporter signature motif; other site 212717004680 Walker B; other site 212717004681 D-loop; other site 212717004682 H-loop/switch region; other site 212717004683 arginine repressor; Provisional; Region: argR; PRK00441 212717004684 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 212717004685 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 212717004686 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 212717004687 ATP-NAD kinase; Region: NAD_kinase; pfam01513 212717004688 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 212717004689 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 212717004690 RNA binding surface [nucleotide binding]; other site 212717004691 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 212717004692 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 212717004693 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 212717004694 TPP-binding site; other site 212717004695 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 212717004696 PYR/PP interface [polypeptide binding]; other site 212717004697 dimer interface [polypeptide binding]; other site 212717004698 TPP binding site [chemical binding]; other site 212717004699 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 212717004700 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 212717004701 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 212717004702 substrate binding pocket [chemical binding]; other site 212717004703 chain length determination region; other site 212717004704 substrate-Mg2+ binding site; other site 212717004705 catalytic residues [active] 212717004706 aspartate-rich region 1; other site 212717004707 active site lid residues [active] 212717004708 aspartate-rich region 2; other site 212717004709 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 212717004710 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 212717004711 generic binding surface I; other site 212717004712 generic binding surface II; other site 212717004713 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14172 212717004714 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 212717004715 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 212717004716 homodimer interface [polypeptide binding]; other site 212717004717 NADP binding site [chemical binding]; other site 212717004718 substrate binding site [chemical binding]; other site 212717004719 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 212717004720 Asp23 family; Region: Asp23; pfam03780 212717004721 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 212717004722 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 212717004723 stage III sporulation protein AF; Region: spore_III_AF; TIGR02896 212717004724 stage III sporulation protein AE; Region: spore_III_AE; TIGR02829 212717004725 stage III sporulation protein AB; Region: spore_III_AB; TIGR02833 212717004726 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 212717004727 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 212717004728 Walker A motif; other site 212717004729 ATP binding site [chemical binding]; other site 212717004730 Walker B motif; other site 212717004731 ribosomal protein S27; Provisional; Region: PLN00209 212717004732 elongation factor P; Validated; Region: PRK00529 212717004733 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 212717004734 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 212717004735 RNA binding site [nucleotide binding]; other site 212717004736 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 212717004737 RNA binding site [nucleotide binding]; other site 212717004738 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 212717004739 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 212717004740 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 212717004741 active site 212717004742 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 212717004743 Dehydroquinase class II; Region: DHquinase_II; pfam01220 212717004744 active site 212717004745 trimer interface [polypeptide binding]; other site 212717004746 dimer interface [polypeptide binding]; other site 212717004747 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 212717004748 Shikimate kinase; Region: SKI; pfam01202 212717004749 ADP binding site [chemical binding]; other site 212717004750 magnesium binding site [ion binding]; other site 212717004751 putative shikimate binding site; other site 212717004752 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 212717004753 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 212717004754 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 212717004755 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 212717004756 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 212717004757 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 212717004758 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 212717004759 Walker A motif; other site 212717004760 ATP binding site [chemical binding]; other site 212717004761 Walker B motif; other site 212717004762 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 212717004763 Domain of unknown function (DUF814); Region: DUF814; pfam05670 212717004764 Hemerythrin-like domain; Region: Hr-like; cd12108 212717004765 Fe binding site [ion binding]; other site 212717004766 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 212717004767 active site 212717004768 Methanothermobacter thermautotrophicus Mth212-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Mth212-like_AP-endo; cd09085 212717004769 active site 212717004770 putative catalytic site [active] 212717004771 phosphate binding site A [ion binding]; other site 212717004772 DNA binding site [nucleotide binding] 212717004773 metal binding site A [ion binding]; metal-binding site 212717004774 putative AP binding site [nucleotide binding]; other site 212717004775 putative metal binding site B [ion binding]; other site 212717004776 phosphate binding site B [ion binding]; other site 212717004777 uracil transporter; Provisional; Region: PRK10720 212717004778 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 212717004779 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 212717004780 active site 212717004781 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 212717004782 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 212717004783 RNA binding surface [nucleotide binding]; other site 212717004784 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 212717004785 active site 212717004786 lipoprotein signal peptidase; Provisional; Region: PRK14791 212717004787 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 212717004788 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 212717004789 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 212717004790 hinge; other site 212717004791 active site 212717004792 3-deoxy-7-phosphoheptulonate synthase; Provisional; Region: PRK13398 212717004793 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 212717004794 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 212717004795 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 212717004796 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 212717004797 active site 212717004798 dimer interface [polypeptide binding]; other site 212717004799 metal binding site [ion binding]; metal-binding site 212717004800 DivIVA protein; Region: DivIVA; pfam05103 212717004801 DivIVA domain; Region: DivI1A_domain; TIGR03544 212717004802 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 212717004803 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 212717004804 RNA binding surface [nucleotide binding]; other site 212717004805 Protein of unknown function (DUF552); Region: DUF552; pfam04472 212717004806 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 212717004807 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 212717004808 catalytic residue [active] 212717004809 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 212717004810 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 212717004811 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 212717004812 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 212717004813 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 212717004814 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 212717004815 stage V sporulation protein E; Region: spoVE; TIGR02615 212717004816 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 212717004817 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 212717004818 Mg++ binding site [ion binding]; other site 212717004819 putative catalytic motif [active] 212717004820 putative substrate binding site [chemical binding]; other site 212717004821 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 212717004822 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 212717004823 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 212717004824 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 212717004825 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 212717004826 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 212717004827 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 212717004828 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 212717004829 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 212717004830 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 212717004831 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 212717004832 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 212717004833 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 212717004834 Cell division protein FtsL; Region: FtsL; cl11433 212717004835 MraW methylase family; Region: Methyltransf_5; pfam01795 212717004836 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 212717004837 cell division protein MraZ; Reviewed; Region: PRK00326 212717004838 MraZ protein; Region: MraZ; pfam02381 212717004839 MraZ protein; Region: MraZ; pfam02381 212717004840 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 212717004841 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 212717004842 TrkA-C domain; Region: TrkA_C; pfam02080 212717004843 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 212717004844 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 212717004845 inhibitor-cofactor binding pocket; inhibition site 212717004846 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212717004847 catalytic residue [active] 212717004848 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 212717004849 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 212717004850 inhibitor-cofactor binding pocket; inhibition site 212717004851 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212717004852 catalytic residue [active] 212717004853 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 212717004854 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 212717004855 DNA binding residues [nucleotide binding] 212717004856 Methyltransferase domain; Region: Methyltransf_31; pfam13847 212717004857 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 212717004858 S-adenosylmethionine binding site [chemical binding]; other site 212717004859 GTP-binding protein YchF; Reviewed; Region: PRK09601 212717004860 YchF GTPase; Region: YchF; cd01900 212717004861 G1 box; other site 212717004862 GTP/Mg2+ binding site [chemical binding]; other site 212717004863 Switch I region; other site 212717004864 G2 box; other site 212717004865 Switch II region; other site 212717004866 G3 box; other site 212717004867 G4 box; other site 212717004868 G5 box; other site 212717004869 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 212717004870 AAA domain; Region: AAA_32; pfam13654 212717004871 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 212717004872 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 212717004873 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 212717004874 sarco/endoplasmic reticulum calcium-translocating P-type ATPase; Region: ATPase-IIA1_Ca; TIGR01116 212717004875 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 212717004876 Soluble P-type ATPase [General function prediction only]; Region: COG4087 212717004877 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 212717004878 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 212717004879 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 212717004880 DRTGG domain; Region: DRTGG; pfam07085 212717004881 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 212717004882 DHHA2 domain; Region: DHHA2; pfam02833 212717004883 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12817 212717004884 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 212717004885 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 212717004886 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12818 212717004887 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 212717004888 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 212717004889 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 212717004890 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 212717004891 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 212717004892 DNA binding residues [nucleotide binding] 212717004893 Flagellar protein YcgR; Region: YcgR_2; pfam12945 212717004894 PilZ domain; Region: PilZ; pfam07238 212717004895 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 212717004896 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 212717004897 P-loop; other site 212717004898 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 212717004899 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 212717004900 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 212717004901 FHIPEP family; Region: FHIPEP; pfam00771 212717004902 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional; Region: PRK12772 212717004903 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 212717004904 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 212717004905 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 212717004906 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 212717004907 flagellar motor protein MotS; Reviewed; Region: PRK06925 212717004908 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 212717004909 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 212717004910 ligand binding site [chemical binding]; other site 212717004911 flagellar motor protein MotP; Reviewed; Region: PRK06926 212717004912 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 212717004913 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 212717004914 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 212717004915 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 212717004916 flagellar operon protein; Region: flg_new; TIGR02530 212717004917 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 212717004918 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 212717004919 Flagellar FliJ protein; Region: FliJ; pfam02050 212717004920 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 212717004921 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 212717004922 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 212717004923 Walker A motif/ATP binding site; other site 212717004924 Walker B motif; other site 212717004925 flagellar assembly protein H; Validated; Region: fliH; PRK06669 212717004926 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 212717004927 FliG C-terminal domain; Region: FliG_C; pfam01706 212717004928 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 212717004929 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 212717004930 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 212717004931 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12630 212717004932 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 212717004933 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 212717004934 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12623 212717004935 flagellin; Provisional; Region: PRK12804 212717004936 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 212717004937 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 212717004938 EDD domain protein, DegV family; Region: DegV; TIGR00762 212717004939 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 212717004940 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 212717004941 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 212717004942 dimer interface [polypeptide binding]; other site 212717004943 ssDNA binding site [nucleotide binding]; other site 212717004944 tetramer (dimer of dimers) interface [polypeptide binding]; other site 212717004945 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 212717004946 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 212717004947 trimer interface [polypeptide binding]; other site 212717004948 putative metal binding site [ion binding]; other site 212717004949 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 212717004950 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 212717004951 Walker A/P-loop; other site 212717004952 ATP binding site [chemical binding]; other site 212717004953 Q-loop/lid; other site 212717004954 ABC transporter signature motif; other site 212717004955 Walker B; other site 212717004956 D-loop; other site 212717004957 H-loop/switch region; other site 212717004958 Predicted transcriptional regulators [Transcription]; Region: COG1725 212717004959 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 212717004960 DNA-binding site [nucleotide binding]; DNA binding site 212717004961 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 212717004962 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 212717004963 flagellin; Provisional; Region: PRK12804 212717004964 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 212717004965 HDOD domain; Region: HDOD; pfam08668 212717004966 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 212717004967 Zn2+ binding site [ion binding]; other site 212717004968 Mg2+ binding site [ion binding]; other site 212717004969 Transposase IS200 like; Region: Y1_Tnp; pfam01797 212717004970 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 212717004971 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 212717004972 active site 212717004973 phosphorylation site [posttranslational modification] 212717004974 intermolecular recognition site; other site 212717004975 dimerization interface [polypeptide binding]; other site 212717004976 Response regulator receiver domain; Region: Response_reg; pfam00072 212717004977 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 212717004978 active site 212717004979 phosphorylation site [posttranslational modification] 212717004980 intermolecular recognition site; other site 212717004981 dimerization interface [polypeptide binding]; other site 212717004982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 212717004983 cytidylyltransferase; Region: cytidylyltransferase; cd02170 212717004984 active site 212717004985 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 212717004986 tetramer interface [polypeptide binding]; other site 212717004987 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 212717004988 active site 212717004989 Mg2+/Mn2+ binding site [ion binding]; other site 212717004990 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 212717004991 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 212717004992 PYR/PP interface [polypeptide binding]; other site 212717004993 dimer interface [polypeptide binding]; other site 212717004994 TPP binding site [chemical binding]; other site 212717004995 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 212717004996 TPP-binding site; other site 212717004997 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 212717004998 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 212717004999 catalytic residue [active] 212717005000 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 212717005001 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 212717005002 dimer interface [polypeptide binding]; other site 212717005003 conserved gate region; other site 212717005004 putative PBP binding loops; other site 212717005005 ABC-ATPase subunit interface; other site 212717005006 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 212717005007 dimer interface [polypeptide binding]; other site 212717005008 conserved gate region; other site 212717005009 putative PBP binding loops; other site 212717005010 ABC-ATPase subunit interface; other site 212717005011 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 212717005012 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717005013 Walker A/P-loop; other site 212717005014 ATP binding site [chemical binding]; other site 212717005015 Q-loop/lid; other site 212717005016 ABC transporter signature motif; other site 212717005017 Walker B; other site 212717005018 D-loop; other site 212717005019 H-loop/switch region; other site 212717005020 putative 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate-binding protein; Region: phnS2; TIGR03261 212717005021 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 212717005022 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 212717005023 active site 212717005024 metal-binding site 212717005025 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 212717005026 TPR motif; other site 212717005027 binding surface 212717005028 Tetratricopeptide repeat; Region: TPR_16; pfam13432 212717005029 Sulfatase; Region: Sulfatase; cl17466 212717005030 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 212717005031 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 212717005032 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 212717005033 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 212717005034 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 212717005035 inhibitor-cofactor binding pocket; inhibition site 212717005036 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212717005037 catalytic residue [active] 212717005038 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 212717005039 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 212717005040 NAD(P) binding site [chemical binding]; other site 212717005041 active site 212717005042 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 212717005043 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 212717005044 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 212717005045 ligand binding site; other site 212717005046 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 212717005047 NeuB family; Region: NeuB; pfam03102 212717005048 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 212717005049 NeuB binding interface [polypeptide binding]; other site 212717005050 putative substrate binding site [chemical binding]; other site 212717005051 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 212717005052 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 212717005053 NAD(P) binding site [chemical binding]; other site 212717005054 homodimer interface [polypeptide binding]; other site 212717005055 substrate binding site [chemical binding]; other site 212717005056 active site 212717005057 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 212717005058 flagellin; Provisional; Region: PRK12804 212717005059 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 212717005060 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 212717005061 flagellar capping protein; Validated; Region: fliD; PRK07737 212717005062 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 212717005063 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 212717005064 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 212717005065 FlaG protein; Region: FlaG; pfam03646 212717005066 flagellar assembly protein FliW; Provisional; Region: PRK13285 212717005067 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 212717005068 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 212717005069 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 212717005070 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 212717005071 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 212717005072 FlgN protein; Region: FlgN; pfam05130 212717005073 flagellar motor switch protein; Validated; Region: PRK08119 212717005074 CheC-like family; Region: CheC; pfam04509 212717005075 CheC-like family; Region: CheC; pfam04509 212717005076 flagellar motor switch protein FliN; Region: fliN; TIGR02480 212717005077 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 212717005078 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 212717005079 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 212717005080 Response regulator receiver domain; Region: Response_reg; pfam00072 212717005081 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 212717005082 active site 212717005083 phosphorylation site [posttranslational modification] 212717005084 intermolecular recognition site; other site 212717005085 dimerization interface [polypeptide binding]; other site 212717005086 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 212717005087 CheC-like family; Region: CheC; pfam04509 212717005088 CheC-like family; Region: CheC; pfam04509 212717005089 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 212717005090 putative binding surface; other site 212717005091 active site 212717005092 P2 response regulator binding domain; Region: P2; pfam07194 212717005093 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 212717005094 P2 response regulator binding domain; Region: P2; pfam07194 212717005095 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 212717005096 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 212717005097 ATP binding site [chemical binding]; other site 212717005098 Mg2+ binding site [ion binding]; other site 212717005099 G-X-G motif; other site 212717005100 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 212717005101 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 212717005102 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 212717005103 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 212717005104 S-adenosylmethionine binding site [chemical binding]; other site 212717005105 CheB methylesterase; Region: CheB_methylest; pfam01339 212717005106 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13490 212717005107 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 212717005108 Uncharacterized conserved protein [Function unknown]; Region: COG1315 212717005109 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 212717005110 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 212717005111 substrate-cofactor binding pocket; other site 212717005112 homodimer interface [polypeptide binding]; other site 212717005113 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212717005114 catalytic residue [active] 212717005115 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 212717005116 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 212717005117 motif II; other site 212717005118 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 212717005119 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 212717005120 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 212717005121 dimer interface [polypeptide binding]; other site 212717005122 PYR/PP interface [polypeptide binding]; other site 212717005123 TPP binding site [chemical binding]; other site 212717005124 substrate binding site [chemical binding]; other site 212717005125 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 212717005126 Domain of unknown function; Region: EKR; smart00890 212717005127 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 212717005128 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 212717005129 TPP-binding site [chemical binding]; other site 212717005130 dimer interface [polypeptide binding]; other site 212717005131 flavodoxin; Provisional; Region: PRK05569 212717005132 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 212717005133 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 212717005134 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 212717005135 active site 212717005136 homodimer interface [polypeptide binding]; other site 212717005137 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 212717005138 DHH family; Region: DHH; pfam01368 212717005139 DHHA1 domain; Region: DHHA1; pfam02272 212717005140 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 212717005141 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 212717005142 AP (apurinic/apyrimidinic) site pocket; other site 212717005143 DNA interaction; other site 212717005144 Metal-binding active site; metal-binding site 212717005145 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 212717005146 thiamine phosphate binding site [chemical binding]; other site 212717005147 active site 212717005148 pyrophosphate binding site [ion binding]; other site 212717005149 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 212717005150 Radical SAM superfamily; Region: Radical_SAM; pfam04055 212717005151 FeS/SAM binding site; other site 212717005152 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 212717005153 ThiS interaction site; other site 212717005154 putative active site [active] 212717005155 tetramer interface [polypeptide binding]; other site 212717005156 ThiS-like ubiquitin; Region: ThiS-like; pfam14453 212717005157 thiamine biosynthesis protein ThiF, family 2; Region: thiF_fam2; TIGR02354 212717005158 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; cl17196 212717005159 ATP binding site [chemical binding]; other site 212717005160 substrate interface [chemical binding]; other site 212717005161 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 212717005162 thiamine phosphate binding site [chemical binding]; other site 212717005163 active site 212717005164 pyrophosphate binding site [ion binding]; other site 212717005165 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 212717005166 substrate binding site [chemical binding]; other site 212717005167 multimerization interface [polypeptide binding]; other site 212717005168 ATP binding site [chemical binding]; other site 212717005169 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 212717005170 dimer interface [polypeptide binding]; other site 212717005171 substrate binding site [chemical binding]; other site 212717005172 ATP binding site [chemical binding]; other site 212717005173 Thiamine-precursor transporter protein (ThiW); Region: ThiW; pfam09512 212717005174 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 212717005175 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 212717005176 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 212717005177 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 212717005178 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 212717005179 conserved cys residue [active] 212717005180 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 212717005181 glycerol kinase; Provisional; Region: glpK; PRK00047 212717005182 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 212717005183 N- and C-terminal domain interface [polypeptide binding]; other site 212717005184 active site 212717005185 MgATP binding site [chemical binding]; other site 212717005186 catalytic site [active] 212717005187 metal binding site [ion binding]; metal-binding site 212717005188 glycerol binding site [chemical binding]; other site 212717005189 homotetramer interface [polypeptide binding]; other site 212717005190 homodimer interface [polypeptide binding]; other site 212717005191 FBP binding site [chemical binding]; other site 212717005192 protein IIAGlc interface [polypeptide binding]; other site 212717005193 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 212717005194 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 212717005195 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 212717005196 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 212717005197 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 212717005198 Arginase family; Region: Arginase; cd09989 212717005199 active site 212717005200 Mn binding site [ion binding]; other site 212717005201 oligomer interface [polypeptide binding]; other site 212717005202 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 212717005203 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 212717005204 metal binding site [ion binding]; metal-binding site 212717005205 active site 212717005206 I-site; other site 212717005207 DNA topoisomerase IV subunit A; Provisional; Region: PRK13979 212717005208 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 212717005209 CAP-like domain; other site 212717005210 active site 212717005211 primary dimer interface [polypeptide binding]; other site 212717005212 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 212717005213 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 212717005214 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 212717005215 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 212717005216 ATP binding site [chemical binding]; other site 212717005217 Mg2+ binding site [ion binding]; other site 212717005218 G-X-G motif; other site 212717005219 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 212717005220 anchoring element; other site 212717005221 dimer interface [polypeptide binding]; other site 212717005222 ATP binding site [chemical binding]; other site 212717005223 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 212717005224 active site 212717005225 metal binding site [ion binding]; metal-binding site 212717005226 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 212717005227 Uncharacterized conserved protein [Function unknown]; Region: COG0398 212717005228 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 212717005229 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 212717005230 binding surface 212717005231 TPR motif; other site 212717005232 TPR repeat; Region: TPR_11; pfam13414 212717005233 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 212717005234 binding surface 212717005235 TPR motif; other site 212717005236 TPR repeat; Region: TPR_11; pfam13414 212717005237 TPR repeat; Region: TPR_11; pfam13414 212717005238 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 212717005239 binding surface 212717005240 TPR motif; other site 212717005241 TPR repeat; Region: TPR_11; pfam13414 212717005242 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 212717005243 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 212717005244 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 212717005245 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 212717005246 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 212717005247 VanW like protein; Region: VanW; pfam04294 212717005248 G5 domain; Region: G5; pfam07501 212717005249 Protein of unknown function (DUF4058); Region: DUF4058; pfam13267 212717005250 Domain of unknown function DUF20; Region: UPF0118; pfam01594 212717005251 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 212717005252 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 212717005253 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 212717005254 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 212717005255 Spore germination protein; Region: Spore_permease; cl17796 212717005256 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 212717005257 phenylhydantoinase; Validated; Region: PRK08323 212717005258 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 212717005259 tetramer interface [polypeptide binding]; other site 212717005260 active site 212717005261 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 212717005262 PAS domain; Region: PAS_9; pfam13426 212717005263 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 212717005264 putative active site [active] 212717005265 heme pocket [chemical binding]; other site 212717005266 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 212717005267 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 212717005268 metal binding site [ion binding]; metal-binding site 212717005269 active site 212717005270 I-site; other site 212717005271 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 212717005272 RNA polymerase factor sigma-70; Validated; Region: PRK06811 212717005273 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 212717005274 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 212717005275 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 212717005276 RNA polymerase factor sigma-70; Validated; Region: PRK06811 212717005277 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 212717005278 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 212717005279 DNA binding residues [nucleotide binding] 212717005280 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 212717005281 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 212717005282 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 212717005283 DNA binding residues [nucleotide binding] 212717005284 MORN repeat; Region: MORN; cl14787 212717005285 MORN repeat; Region: MORN; cl14787 212717005286 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 212717005287 hypothetical protein; Provisional; Region: PRK02399 212717005288 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 212717005289 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 212717005290 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 212717005291 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 212717005292 Walker A motif; other site 212717005293 ATP binding site [chemical binding]; other site 212717005294 Walker B motif; other site 212717005295 arginine finger; other site 212717005296 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 212717005297 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 212717005298 putative active site [active] 212717005299 putative metal binding site [ion binding]; other site 212717005300 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 212717005301 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 212717005302 Peptidase family S41; Region: Peptidase_S41; pfam03572 212717005303 Active site serine [active] 212717005304 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 212717005305 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 212717005306 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 212717005307 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 212717005308 Walker A/P-loop; other site 212717005309 ATP binding site [chemical binding]; other site 212717005310 Q-loop/lid; other site 212717005311 ABC transporter signature motif; other site 212717005312 Walker B; other site 212717005313 D-loop; other site 212717005314 H-loop/switch region; other site 212717005315 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717005316 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 212717005317 dimer interface [polypeptide binding]; other site 212717005318 phosphorylation site [posttranslational modification] 212717005319 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 212717005320 ATP binding site [chemical binding]; other site 212717005321 Mg2+ binding site [ion binding]; other site 212717005322 G-X-G motif; other site 212717005323 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 212717005324 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 212717005325 active site 212717005326 phosphorylation site [posttranslational modification] 212717005327 intermolecular recognition site; other site 212717005328 dimerization interface [polypeptide binding]; other site 212717005329 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 212717005330 DNA binding site [nucleotide binding] 212717005331 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 212717005332 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 212717005333 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 212717005334 substrate binding pocket [chemical binding]; other site 212717005335 dihydropteroate synthase; Region: DHPS; TIGR01496 212717005336 dimer interface [polypeptide binding]; other site 212717005337 inhibitor binding site; inhibition site 212717005338 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 212717005339 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 212717005340 B12 binding site [chemical binding]; other site 212717005341 cobalt ligand [ion binding]; other site 212717005342 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 212717005343 Predicted dehydrogenase [General function prediction only]; Region: COG0579 212717005344 hydroxyglutarate oxidase; Provisional; Region: PRK11728 212717005345 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 212717005346 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 212717005347 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 212717005348 Probable transposase; Region: OrfB_IS605; pfam01385 212717005349 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 212717005350 Membrane protein of unknown function; Region: DUF360; pfam04020 212717005351 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 212717005352 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 212717005353 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 212717005354 Walker A/P-loop; other site 212717005355 ATP binding site [chemical binding]; other site 212717005356 Q-loop/lid; other site 212717005357 ABC transporter signature motif; other site 212717005358 Walker B; other site 212717005359 D-loop; other site 212717005360 H-loop/switch region; other site 212717005361 formimidoylglutamase; Provisional; Region: PRK13775 212717005362 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 212717005363 putative active site [active] 212717005364 putative metal binding site [ion binding]; other site 212717005365 EamA-like transporter family; Region: EamA; pfam00892 212717005366 EamA-like transporter family; Region: EamA; pfam00892 212717005367 Uncharacterized conserved protein [Function unknown]; Region: COG2968 212717005368 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 212717005369 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 212717005370 active site 212717005371 metal binding site [ion binding]; metal-binding site 212717005372 homotetramer interface [polypeptide binding]; other site 212717005373 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 212717005374 RNA polymerase factor sigma-70; Validated; Region: PRK06811 212717005375 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 212717005376 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 212717005377 DNA binding residues [nucleotide binding] 212717005378 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717005379 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 212717005380 dimer interface [polypeptide binding]; other site 212717005381 phosphorylation site [posttranslational modification] 212717005382 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 212717005383 ATP binding site [chemical binding]; other site 212717005384 Mg2+ binding site [ion binding]; other site 212717005385 G-X-G motif; other site 212717005386 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 212717005387 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 212717005388 active site 212717005389 dimerization interface [polypeptide binding]; other site 212717005390 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 212717005391 DNA binding site [nucleotide binding] 212717005392 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 212717005393 FtsX-like permease family; Region: FtsX; pfam02687 212717005394 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 212717005395 FtsX-like permease family; Region: FtsX; pfam02687 212717005396 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 212717005397 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 212717005398 Walker A/P-loop; other site 212717005399 ATP binding site [chemical binding]; other site 212717005400 Q-loop/lid; other site 212717005401 ABC transporter signature motif; other site 212717005402 Walker B; other site 212717005403 D-loop; other site 212717005404 H-loop/switch region; other site 212717005405 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 212717005406 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 212717005407 Coenzyme A binding pocket [chemical binding]; other site 212717005408 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 212717005409 binding surface 212717005410 TPR motif; other site 212717005411 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 212717005412 binding surface 212717005413 TPR motif; other site 212717005414 TPR repeat; Region: TPR_11; pfam13414 212717005415 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 212717005416 binding surface 212717005417 TPR repeat; Region: TPR_11; pfam13414 212717005418 TPR motif; other site 212717005419 LrgA family; Region: LrgA; pfam03788 212717005420 LrgB-like family; Region: LrgB; pfam04172 212717005421 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 212717005422 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 212717005423 catalytic residue [active] 212717005424 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 212717005425 ApbE family; Region: ApbE; pfam02424 212717005426 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 212717005427 Cache domain; Region: Cache_2; pfam08269 212717005428 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 212717005429 dimerization interface [polypeptide binding]; other site 212717005430 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 212717005431 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 212717005432 dimer interface [polypeptide binding]; other site 212717005433 putative CheW interface [polypeptide binding]; other site 212717005434 DNA topoisomerase III; Provisional; Region: PRK07726 212717005435 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 212717005436 active site 212717005437 putative interdomain interaction site [polypeptide binding]; other site 212717005438 putative metal-binding site [ion binding]; other site 212717005439 putative nucleotide binding site [chemical binding]; other site 212717005440 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; cl11986 212717005441 domain I; other site 212717005442 DNA binding groove [nucleotide binding] 212717005443 phosphate binding site [ion binding]; other site 212717005444 domain II; other site 212717005445 domain III; other site 212717005446 nucleotide binding site [chemical binding]; other site 212717005447 catalytic site [active] 212717005448 domain IV; other site 212717005449 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 212717005450 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 212717005451 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 212717005452 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 212717005453 metal binding site [ion binding]; metal-binding site 212717005454 active site 212717005455 I-site; other site 212717005456 Cache domain; Region: Cache_1; pfam02743 212717005457 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 212717005458 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 212717005459 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 212717005460 dimer interface [polypeptide binding]; other site 212717005461 putative CheW interface [polypeptide binding]; other site 212717005462 Putative Lactate dehydrogenase and (R)-2-Hydroxyglutarate Dehydrogenase-like proteins, NAD-binding and catalytic domains; Region: HGDH_LDH_like; cd12185 212717005463 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 212717005464 putative ligand binding site [chemical binding]; other site 212717005465 putative NAD binding site [chemical binding]; other site 212717005466 catalytic site [active] 212717005467 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 212717005468 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 212717005469 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 212717005470 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 212717005471 DNA binding residues [nucleotide binding] 212717005472 dimer interface [polypeptide binding]; other site 212717005473 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 212717005474 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 212717005475 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 212717005476 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 212717005477 Predicted membrane protein [Function unknown]; Region: COG2855 212717005478 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 212717005479 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 212717005480 FMN-binding domain; Region: FMN_bind; pfam04205 212717005481 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 212717005482 L-aspartate oxidase; Provisional; Region: PRK06175 212717005483 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 212717005484 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 212717005485 dimerization interface [polypeptide binding]; other site 212717005486 Histidine kinase; Region: His_kinase; pfam06580 212717005487 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 212717005488 ATP binding site [chemical binding]; other site 212717005489 Mg2+ binding site [ion binding]; other site 212717005490 G-X-G motif; other site 212717005491 Response regulator receiver domain; Region: Response_reg; pfam00072 212717005492 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 212717005493 active site 212717005494 phosphorylation site [posttranslational modification] 212717005495 intermolecular recognition site; other site 212717005496 dimerization interface [polypeptide binding]; other site 212717005497 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 212717005498 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 212717005499 SWIM zinc finger; Region: SWIM; pfam04434 212717005500 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 212717005501 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 212717005502 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 212717005503 ATP binding site [chemical binding]; other site 212717005504 putative Mg++ binding site [ion binding]; other site 212717005505 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 212717005506 nucleotide binding region [chemical binding]; other site 212717005507 ATP-binding site [chemical binding]; other site 212717005508 tRNA pseudouridine synthase A; Reviewed; Region: PRK12434 212717005509 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 212717005510 dimerization interface 3.5A [polypeptide binding]; other site 212717005511 active site 212717005512 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 212717005513 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 212717005514 TrkA-C domain; Region: TrkA_C; pfam02080 212717005515 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 212717005516 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 212717005517 myosin-cross-reactive antigen; Provisional; Region: PRK13977 212717005518 helicase 45; Provisional; Region: PTZ00424 212717005519 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 212717005520 ATP binding site [chemical binding]; other site 212717005521 Mg++ binding site [ion binding]; other site 212717005522 motif III; other site 212717005523 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 212717005524 nucleotide binding region [chemical binding]; other site 212717005525 ATP-binding site [chemical binding]; other site 212717005526 Cache domain; Region: Cache_1; pfam02743 212717005527 HAMP domain; Region: HAMP; pfam00672 212717005528 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 212717005529 dimer interface [polypeptide binding]; other site 212717005530 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 212717005531 putative CheW interface [polypeptide binding]; other site 212717005532 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 212717005533 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 212717005534 non-specific DNA binding site [nucleotide binding]; other site 212717005535 salt bridge; other site 212717005536 sequence-specific DNA binding site [nucleotide binding]; other site 212717005537 Domain of unknown function (DUF955); Region: DUF955; pfam06114 212717005538 AAA domain; Region: AAA_26; pfam13500 212717005539 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 212717005540 BioY family; Region: BioY; pfam02632 212717005541 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 212717005542 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 212717005543 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 212717005544 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 212717005545 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 212717005546 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 212717005547 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 212717005548 multifunctional aminopeptidase A; Provisional; Region: PRK00913 212717005549 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 212717005550 interface (dimer of trimers) [polypeptide binding]; other site 212717005551 Substrate-binding/catalytic site; other site 212717005552 Zn-binding sites [ion binding]; other site 212717005553 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 212717005554 Protein of unknown function (DUF1533); Region: DUF1533; pfam07550 212717005555 Protein of unknown function (DUF1533); Region: DUF1533; pfam07550 212717005556 Protein of unknown function (DUF1533); Region: DUF1533; pfam07550 212717005557 Protein of unknown function (DUF1533); Region: DUF1533; pfam07550 212717005558 Protein of unknown function (DUF1533); Region: DUF1533; pfam07550 212717005559 Protein of unknown function (DUF1533); Region: DUF1533; pfam07550 212717005560 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717005561 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717005562 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717005563 Family of unknown function (DUF438); Region: DUF438; pfam04282 212717005564 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 212717005565 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 212717005566 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 212717005567 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 212717005568 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 212717005569 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 212717005570 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 212717005571 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 212717005572 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 212717005573 ligand binding site [chemical binding]; other site 212717005574 flexible hinge region; other site 212717005575 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 212717005576 putative switch regulator; other site 212717005577 non-specific DNA interactions [nucleotide binding]; other site 212717005578 DNA binding site [nucleotide binding] 212717005579 sequence specific DNA binding site [nucleotide binding]; other site 212717005580 putative cAMP binding site [chemical binding]; other site 212717005581 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 212717005582 active site 212717005583 homodimer interface [polypeptide binding]; other site 212717005584 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 212717005585 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 212717005586 Probable transposase; Region: OrfB_IS605; pfam01385 212717005587 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 212717005588 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 212717005589 XdhC Rossmann domain; Region: XdhC_C; pfam13478 212717005590 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 212717005591 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 212717005592 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 212717005593 dimerization interface [polypeptide binding]; other site 212717005594 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 212717005595 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 212717005596 dimer interface [polypeptide binding]; other site 212717005597 putative CheW interface [polypeptide binding]; other site 212717005598 cytosine deaminase; Provisional; Region: PRK09230 212717005599 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 212717005600 active site 212717005601 Creatinine amidohydrolase; Region: Creatininase; pfam02633 212717005602 EamA-like transporter family; Region: EamA; pfam00892 212717005603 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 212717005604 EamA-like transporter family; Region: EamA; pfam00892 212717005605 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 212717005606 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 212717005607 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 212717005608 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 212717005609 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 212717005610 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 212717005611 S-adenosylmethionine binding site [chemical binding]; other site 212717005612 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 212717005613 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 212717005614 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 212717005615 Walker A/P-loop; other site 212717005616 ATP binding site [chemical binding]; other site 212717005617 Q-loop/lid; other site 212717005618 ABC transporter signature motif; other site 212717005619 Walker B; other site 212717005620 D-loop; other site 212717005621 H-loop/switch region; other site 212717005622 Predicted transcriptional regulators [Transcription]; Region: COG1725 212717005623 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 212717005624 DNA-binding site [nucleotide binding]; DNA binding site 212717005625 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 212717005626 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 212717005627 P loop; other site 212717005628 Nucleotide binding site [chemical binding]; other site 212717005629 DTAP/Switch II; other site 212717005630 Switch I; other site 212717005631 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 212717005632 P loop; other site 212717005633 Nucleotide binding site [chemical binding]; other site 212717005634 DTAP/Switch II; other site 212717005635 Switch I; other site 212717005636 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 212717005637 Putative cyclase; Region: Cyclase; pfam04199 212717005638 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 212717005639 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 212717005640 putative DNA binding site [nucleotide binding]; other site 212717005641 allantoate amidohydrolase; Reviewed; Region: PRK09290 212717005642 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 212717005643 active site 212717005644 metal binding site [ion binding]; metal-binding site 212717005645 dimer interface [polypeptide binding]; other site 212717005646 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 212717005647 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 212717005648 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 212717005649 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 212717005650 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 212717005651 dimer interface [polypeptide binding]; other site 212717005652 conserved gate region; other site 212717005653 putative PBP binding loops; other site 212717005654 ABC-ATPase subunit interface; other site 212717005655 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 212717005656 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 212717005657 dimer interface [polypeptide binding]; other site 212717005658 conserved gate region; other site 212717005659 putative PBP binding loops; other site 212717005660 ABC-ATPase subunit interface; other site 212717005661 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 212717005662 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 212717005663 Walker A/P-loop; other site 212717005664 ATP binding site [chemical binding]; other site 212717005665 Q-loop/lid; other site 212717005666 ABC transporter signature motif; other site 212717005667 Walker B; other site 212717005668 D-loop; other site 212717005669 H-loop/switch region; other site 212717005670 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 212717005671 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 212717005672 Walker A/P-loop; other site 212717005673 ATP binding site [chemical binding]; other site 212717005674 Q-loop/lid; other site 212717005675 ABC transporter signature motif; other site 212717005676 Walker B; other site 212717005677 D-loop; other site 212717005678 H-loop/switch region; other site 212717005679 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717005680 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 212717005681 dimerization interface [polypeptide binding]; other site 212717005682 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 212717005683 dimer interface [polypeptide binding]; other site 212717005684 phosphorylation site [posttranslational modification] 212717005685 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 212717005686 ATP binding site [chemical binding]; other site 212717005687 Mg2+ binding site [ion binding]; other site 212717005688 G-X-G motif; other site 212717005689 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 212717005690 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 212717005691 active site 212717005692 phosphorylation site [posttranslational modification] 212717005693 intermolecular recognition site; other site 212717005694 dimerization interface [polypeptide binding]; other site 212717005695 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 212717005696 DNA binding site [nucleotide binding] 212717005697 Radical SAM superfamily; Region: Radical_SAM; pfam04055 212717005698 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 212717005699 FeS/SAM binding site; other site 212717005700 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 212717005701 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 212717005702 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 212717005703 active site 212717005704 8-oxo-dGMP binding site [chemical binding]; other site 212717005705 nudix motif; other site 212717005706 metal binding site [ion binding]; metal-binding site 212717005707 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 212717005708 PLD-like domain; Region: PLDc_2; pfam13091 212717005709 putative homodimer interface [polypeptide binding]; other site 212717005710 putative active site [active] 212717005711 catalytic site [active] 212717005712 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 212717005713 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 212717005714 ATP binding site [chemical binding]; other site 212717005715 putative Mg++ binding site [ion binding]; other site 212717005716 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 212717005717 nucleotide binding region [chemical binding]; other site 212717005718 ATP-binding site [chemical binding]; other site 212717005719 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 212717005720 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 212717005721 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 212717005722 putative active site [active] 212717005723 putative NTP binding site [chemical binding]; other site 212717005724 putative nucleic acid binding site [nucleotide binding]; other site 212717005725 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 212717005726 FtsX-like permease family; Region: FtsX; pfam02687 212717005727 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 212717005728 FtsX-like permease family; Region: FtsX; pfam02687 212717005729 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 212717005730 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 212717005731 Walker A/P-loop; other site 212717005732 ATP binding site [chemical binding]; other site 212717005733 Q-loop/lid; other site 212717005734 ABC transporter signature motif; other site 212717005735 Walker B; other site 212717005736 D-loop; other site 212717005737 H-loop/switch region; other site 212717005738 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717005739 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 212717005740 dimer interface [polypeptide binding]; other site 212717005741 phosphorylation site [posttranslational modification] 212717005742 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 212717005743 ATP binding site [chemical binding]; other site 212717005744 Mg2+ binding site [ion binding]; other site 212717005745 G-X-G motif; other site 212717005746 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 212717005747 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 212717005748 active site 212717005749 phosphorylation site [posttranslational modification] 212717005750 intermolecular recognition site; other site 212717005751 dimerization interface [polypeptide binding]; other site 212717005752 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 212717005753 DNA binding site [nucleotide binding] 212717005754 Transposase IS200 like; Region: Y1_Tnp; cl00848 212717005755 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 212717005756 ligand binding site [chemical binding]; other site 212717005757 flexible hinge region; other site 212717005758 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 212717005759 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 212717005760 motif II; other site 212717005761 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 212717005762 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 212717005763 ParB-like nuclease domain; Region: ParBc; cl02129 212717005764 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 212717005765 DNA methylase; Region: N6_N4_Mtase; pfam01555 212717005766 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 212717005767 Integrase core domain; Region: rve_3; pfam13683 212717005768 Protein of unknown function DUF91; Region: DUF91; cl00709 212717005769 ParB-like nuclease domain; Region: ParB; smart00470 212717005770 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 212717005771 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 212717005772 P-loop; other site 212717005773 Magnesium ion binding site [ion binding]; other site 212717005774 transport-energizing ATPase, TRC40/GET3/ArsA family; Region: GET3_arsA_TRC40; TIGR00345 212717005775 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 212717005776 Magnesium ion binding site [ion binding]; other site 212717005777 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 212717005778 Predicted ATPase [General function prediction only]; Region: COG5293 212717005779 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 212717005780 TRAM domain; Region: TRAM; cl01282 212717005781 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 212717005782 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 212717005783 S-adenosylmethionine binding site [chemical binding]; other site 212717005784 RDD family; Region: RDD; cl00746 212717005785 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 212717005786 Sulfatase; Region: Sulfatase; pfam00884 212717005787 hypothetical protein; Provisional; Region: PRK10621 212717005788 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 212717005789 dipeptidase PepV; Reviewed; Region: PRK07318 212717005790 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 212717005791 active site 212717005792 metal binding site [ion binding]; metal-binding site 212717005793 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 212717005794 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 212717005795 putative substrate binding site 1 [chemical binding]; other site 212717005796 Na binding site 1 [ion binding]; other site 212717005797 Na2 binding site [ion binding]; other site 212717005798 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 212717005799 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 212717005800 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 212717005801 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717005802 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 212717005803 dimerization interface [polypeptide binding]; other site 212717005804 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 212717005805 dimer interface [polypeptide binding]; other site 212717005806 phosphorylation site [posttranslational modification] 212717005807 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 212717005808 ATP binding site [chemical binding]; other site 212717005809 Mg2+ binding site [ion binding]; other site 212717005810 G-X-G motif; other site 212717005811 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 212717005812 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 212717005813 intermolecular recognition site; other site 212717005814 active site 212717005815 dimerization interface [polypeptide binding]; other site 212717005816 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 212717005817 DNA binding site [nucleotide binding] 212717005818 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 212717005819 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 212717005820 Soluble P-type ATPase [General function prediction only]; Region: COG4087 212717005821 oligoendopeptidase F; Region: pepF; TIGR00181 212717005822 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 212717005823 active site 212717005824 Zn binding site [ion binding]; other site 212717005825 histidyl-tRNA synthetase; Region: hisS; TIGR00442 212717005826 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 212717005827 dimer interface [polypeptide binding]; other site 212717005828 motif 1; other site 212717005829 active site 212717005830 motif 2; other site 212717005831 motif 3; other site 212717005832 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 212717005833 anticodon binding site; other site 212717005834 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 212717005835 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 212717005836 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 212717005837 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 212717005838 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 212717005839 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 212717005840 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 212717005841 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 212717005842 purine monophosphate binding site [chemical binding]; other site 212717005843 dimer interface [polypeptide binding]; other site 212717005844 putative catalytic residues [active] 212717005845 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 212717005846 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 212717005847 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 212717005848 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 212717005849 active site 212717005850 substrate binding site [chemical binding]; other site 212717005851 cosubstrate binding site; other site 212717005852 catalytic site [active] 212717005853 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 212717005854 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 212717005855 dimerization interface [polypeptide binding]; other site 212717005856 putative ATP binding site [chemical binding]; other site 212717005857 amidophosphoribosyltransferase; Provisional; Region: PRK05793 212717005858 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 212717005859 active site 212717005860 tetramer interface [polypeptide binding]; other site 212717005861 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 212717005862 active site 212717005863 AIR carboxylase; Region: AIRC; pfam00731 212717005864 Uncharacterized conserved protein [Function unknown]; Region: COG1434 212717005865 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 212717005866 putative active site [active] 212717005867 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 212717005868 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 212717005869 ligand binding site [chemical binding]; other site 212717005870 flexible hinge region; other site 212717005871 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 212717005872 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 212717005873 Ferredoxin [Energy production and conversion]; Region: COG1146 212717005874 4Fe-4S binding domain; Region: Fer4_6; pfam12837 212717005875 Permease family; Region: Xan_ur_permease; pfam00860 212717005876 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 212717005877 amino acid carrier protein; Region: agcS; TIGR00835 212717005878 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 212717005879 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 212717005880 Carbon starvation protein CstA; Region: CstA; pfam02554 212717005881 Carbon starvation protein CstA; Region: CstA; pfam02554 212717005882 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 212717005883 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 212717005884 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 212717005885 Histidine kinase; Region: His_kinase; pfam06580 212717005886 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 212717005887 ATP binding site [chemical binding]; other site 212717005888 Mg2+ binding site [ion binding]; other site 212717005889 G-X-G motif; other site 212717005890 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 212717005891 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 212717005892 active site 212717005893 phosphorylation site [posttranslational modification] 212717005894 intermolecular recognition site; other site 212717005895 dimerization interface [polypeptide binding]; other site 212717005896 LytTr DNA-binding domain; Region: LytTR; pfam04397 212717005897 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717005898 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717005899 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717005900 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 212717005901 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 212717005902 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 212717005903 putative L-serine binding site [chemical binding]; other site 212717005904 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 212717005905 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 212717005906 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 212717005907 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 212717005908 metal binding site [ion binding]; metal-binding site 212717005909 active site 212717005910 I-site; other site 212717005911 Predicted transcriptional regulators [Transcription]; Region: COG1725 212717005912 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 212717005913 DNA-binding site [nucleotide binding]; DNA binding site 212717005914 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 212717005915 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 212717005916 Walker A/P-loop; other site 212717005917 ATP binding site [chemical binding]; other site 212717005918 Q-loop/lid; other site 212717005919 ABC transporter signature motif; other site 212717005920 Walker B; other site 212717005921 D-loop; other site 212717005922 H-loop/switch region; other site 212717005923 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 212717005924 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 212717005925 Walker A/P-loop; other site 212717005926 ATP binding site [chemical binding]; other site 212717005927 Q-loop/lid; other site 212717005928 ABC transporter signature motif; other site 212717005929 Walker B; other site 212717005930 D-loop; other site 212717005931 H-loop/switch region; other site 212717005932 putative transposase OrfB; Reviewed; Region: PHA02517 212717005933 HTH-like domain; Region: HTH_21; pfam13276 212717005934 Integrase core domain; Region: rve; pfam00665 212717005935 Integrase core domain; Region: rve_2; pfam13333 212717005936 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 212717005937 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 212717005938 active site 212717005939 metal binding site [ion binding]; metal-binding site 212717005940 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 212717005941 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 212717005942 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 212717005943 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 212717005944 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 212717005945 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 212717005946 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 212717005947 intersubunit interface [polypeptide binding]; other site 212717005948 active site 212717005949 catalytic residue [active] 212717005950 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 212717005951 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 212717005952 active site 212717005953 metal binding site [ion binding]; metal-binding site 212717005954 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 212717005955 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 212717005956 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 212717005957 amphipathic channel; other site 212717005958 Asn-Pro-Ala signature motifs; other site 212717005959 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 212717005960 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 212717005961 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 212717005962 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 212717005963 NAD binding site [chemical binding]; other site 212717005964 dimer interface [polypeptide binding]; other site 212717005965 substrate binding site [chemical binding]; other site 212717005966 tetramer (dimer of dimers) interface [polypeptide binding]; other site 212717005967 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 212717005968 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 212717005969 ATP binding site [chemical binding]; other site 212717005970 Mg++ binding site [ion binding]; other site 212717005971 motif III; other site 212717005972 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 212717005973 nucleotide binding region [chemical binding]; other site 212717005974 ATP-binding site [chemical binding]; other site 212717005975 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 212717005976 RNA binding site [nucleotide binding]; other site 212717005977 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 212717005978 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 212717005979 Cl- selectivity filter; other site 212717005980 Cl- binding residues [ion binding]; other site 212717005981 pore gating glutamate residue; other site 212717005982 dimer interface [polypeptide binding]; other site 212717005983 H+/Cl- coupling transport residue; other site 212717005984 TrkA-C domain; Region: TrkA_C; pfam02080 212717005985 EDD domain protein, DegV family; Region: DegV; TIGR00762 212717005986 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 212717005987 Predicted membrane protein [Function unknown]; Region: COG4129 212717005988 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 212717005989 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 212717005990 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 212717005991 Putative zinc ribbon domain; Region: DUF164; pfam02591 212717005992 Uncharacterized conserved protein [Function unknown]; Region: COG0327 212717005993 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 212717005994 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 212717005995 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 212717005996 S-adenosylmethionine binding site [chemical binding]; other site 212717005997 Protein of unknown function (DUF2679); Region: DUF2679; pfam10882 212717005998 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 212717005999 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 212717006000 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 212717006001 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 212717006002 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 212717006003 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 212717006004 DNA binding residues [nucleotide binding] 212717006005 DNA primase; Validated; Region: dnaG; PRK05667 212717006006 CHC2 zinc finger; Region: zf-CHC2; pfam01807 212717006007 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 212717006008 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 212717006009 active site 212717006010 metal binding site [ion binding]; metal-binding site 212717006011 interdomain interaction site; other site 212717006012 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 212717006013 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 212717006014 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 212717006015 Zn2+ binding site [ion binding]; other site 212717006016 Mg2+ binding site [ion binding]; other site 212717006017 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 212717006018 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 212717006019 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 212717006020 pyruvate phosphate dikinase; Provisional; Region: PRK09279 212717006021 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 212717006022 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 212717006023 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 212717006024 HTH domain; Region: HTH_11; pfam08279 212717006025 FOG: CBS domain [General function prediction only]; Region: COG0517 212717006026 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_4; cd04617 212717006027 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 212717006028 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 212717006029 Recombination protein O C terminal; Region: RecO_C; pfam02565 212717006030 GTPase Era; Reviewed; Region: era; PRK00089 212717006031 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 212717006032 G1 box; other site 212717006033 GTP/Mg2+ binding site [chemical binding]; other site 212717006034 Switch I region; other site 212717006035 G2 box; other site 212717006036 Switch II region; other site 212717006037 G3 box; other site 212717006038 G4 box; other site 212717006039 G5 box; other site 212717006040 KH domain; Region: KH_2; pfam07650 212717006041 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 212717006042 active site 212717006043 catalytic motif [active] 212717006044 Zn binding site [ion binding]; other site 212717006045 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 212717006046 PAP2_like proteins, diacylglycerol_kinase like sub-family. In some prokaryotes, PAP2_like phosphatase domains appear fused to E. coli DAGK-like trans-membrane diacylglycerol kinase domains. The cellular function of these architectures remains to be...; Region: PAP2_diacylglycerolkinase; cd03383 212717006047 active site 212717006048 metal-binding heat shock protein; Provisional; Region: PRK00016 212717006049 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 212717006050 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 212717006051 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 212717006052 Zn2+ binding site [ion binding]; other site 212717006053 Mg2+ binding site [ion binding]; other site 212717006054 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 212717006055 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 212717006056 Yqey-like protein; Region: YqeY; pfam09424 212717006057 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 212717006058 nucleotide binding site/active site [active] 212717006059 HIT family signature motif; other site 212717006060 catalytic residue [active] 212717006061 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 212717006062 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 212717006063 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 212717006064 RNA methyltransferase, RsmE family; Region: TIGR00046 212717006065 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 212717006066 DNA methylase; Region: N6_N4_Mtase; cl17433 212717006067 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 212717006068 S-adenosylmethionine binding site [chemical binding]; other site 212717006069 chaperone protein DnaJ; Provisional; Region: PRK14297 212717006070 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 212717006071 HSP70 interaction site [polypeptide binding]; other site 212717006072 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 212717006073 substrate binding site [polypeptide binding]; other site 212717006074 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 212717006075 Zn binding sites [ion binding]; other site 212717006076 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 212717006077 dimer interface [polypeptide binding]; other site 212717006078 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 212717006079 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 212717006080 nucleotide binding site [chemical binding]; other site 212717006081 NEF interaction site [polypeptide binding]; other site 212717006082 SBD interface [polypeptide binding]; other site 212717006083 GrpE; Region: GrpE; pfam01025 212717006084 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 212717006085 dimer interface [polypeptide binding]; other site 212717006086 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 212717006087 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 212717006088 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 212717006089 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 212717006090 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 212717006091 FeS/SAM binding site; other site 212717006092 HemN C-terminal domain; Region: HemN_C; pfam06969 212717006093 GTP-binding protein LepA; Provisional; Region: PRK05433 212717006094 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 212717006095 G1 box; other site 212717006096 putative GEF interaction site [polypeptide binding]; other site 212717006097 GTP/Mg2+ binding site [chemical binding]; other site 212717006098 Switch I region; other site 212717006099 G2 box; other site 212717006100 G3 box; other site 212717006101 Switch II region; other site 212717006102 G4 box; other site 212717006103 G5 box; other site 212717006104 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 212717006105 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 212717006106 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 212717006107 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 212717006108 stage II sporulation protein P; Region: spore_II_P; TIGR02867 212717006109 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 212717006110 stage II sporulation protein P; Region: spore_II_P; TIGR02867 212717006111 germination protease; Provisional; Region: PRK12362 212717006112 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 212717006113 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 212717006114 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 212717006115 Competence protein; Region: Competence; pfam03772 212717006116 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 212717006117 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 212717006118 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 212717006119 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 212717006120 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 212717006121 active site 212717006122 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 212717006123 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 212717006124 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 212717006125 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 212717006126 E3 interaction surface; other site 212717006127 lipoyl attachment site [posttranslational modification]; other site 212717006128 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 212717006129 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 212717006130 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 212717006131 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 212717006132 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 212717006133 MarR family; Region: MarR_2; pfam12802 212717006134 MarR family; Region: MarR_2; cl17246 212717006135 SLBB domain; Region: SLBB; pfam10531 212717006136 comEA protein; Region: comE; TIGR01259 212717006137 Helix-hairpin-helix motif; Region: HHH; pfam00633 212717006138 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 212717006139 DNA binding site [nucleotide binding] 212717006140 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 212717006141 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 212717006142 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 212717006143 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 212717006144 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 212717006145 active site 212717006146 Transcriptional regulator [Transcription]; Region: LytR; COG1316 212717006147 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 212717006148 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 212717006149 Zn2+ binding site [ion binding]; other site 212717006150 Mg2+ binding site [ion binding]; other site 212717006151 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 212717006152 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 212717006153 active site 212717006154 (T/H)XGH motif; other site 212717006155 GTPase CgtA; Reviewed; Region: obgE; PRK12297 212717006156 GTP1/OBG; Region: GTP1_OBG; pfam01018 212717006157 Obg GTPase; Region: Obg; cd01898 212717006158 G1 box; other site 212717006159 GTP/Mg2+ binding site [chemical binding]; other site 212717006160 Switch I region; other site 212717006161 G2 box; other site 212717006162 G3 box; other site 212717006163 Switch II region; other site 212717006164 G4 box; other site 212717006165 G5 box; other site 212717006166 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 212717006167 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 212717006168 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 212717006169 hypothetical protein; Provisional; Region: PRK14553 212717006170 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 212717006171 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 212717006172 homodimer interface [polypeptide binding]; other site 212717006173 oligonucleotide binding site [chemical binding]; other site 212717006174 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 212717006175 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 212717006176 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 212717006177 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 212717006178 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 212717006179 FeS/SAM binding site; other site 212717006180 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 212717006181 Peptidase family M50; Region: Peptidase_M50; pfam02163 212717006182 active site 212717006183 putative substrate binding region [chemical binding]; other site 212717006184 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 212717006185 Peptidase family M23; Region: Peptidase_M23; pfam01551 212717006186 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 212717006187 septum site-determining protein MinD; Region: minD_bact; TIGR01968 212717006188 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 212717006189 Switch I; other site 212717006190 Switch II; other site 212717006191 septum formation inhibitor; Reviewed; Region: minC; PRK00513 212717006192 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 212717006193 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 212717006194 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 212717006195 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 212717006196 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 212717006197 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 212717006198 rod shape-determining protein MreC; Provisional; Region: PRK13922 212717006199 rod shape-determining protein MreC; Region: MreC; pfam04085 212717006200 rod shape-determining protein MreB; Provisional; Region: PRK13927 212717006201 MreB and similar proteins; Region: MreB_like; cd10225 212717006202 nucleotide binding site [chemical binding]; other site 212717006203 Mg binding site [ion binding]; other site 212717006204 putative protofilament interaction site [polypeptide binding]; other site 212717006205 RodZ interaction site [polypeptide binding]; other site 212717006206 hypothetical protein; Reviewed; Region: PRK00024 212717006207 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 212717006208 helix-hairpin-helix signature motif; other site 212717006209 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 212717006210 MPN+ (JAMM) motif; other site 212717006211 Zinc-binding site [ion binding]; other site 212717006212 Maf-like protein; Reviewed; Region: PRK00078 212717006213 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 212717006214 active site 212717006215 dimer interface [polypeptide binding]; other site 212717006216 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 212717006217 NlpC/P60 family; Region: NLPC_P60; pfam00877 212717006218 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 212717006219 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 212717006220 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 212717006221 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 212717006222 FAD binding site [chemical binding]; other site 212717006223 homotetramer interface [polypeptide binding]; other site 212717006224 substrate binding pocket [chemical binding]; other site 212717006225 catalytic base [active] 212717006226 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 212717006227 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 212717006228 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 212717006229 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 212717006230 Ligand binding site [chemical binding]; other site 212717006231 Electron transfer flavoprotein domain; Region: ETF; pfam01012 212717006232 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 212717006233 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 212717006234 FAD binding site [chemical binding]; other site 212717006235 homotetramer interface [polypeptide binding]; other site 212717006236 substrate binding pocket [chemical binding]; other site 212717006237 catalytic base [active] 212717006238 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 212717006239 active site 2 [active] 212717006240 active site 1 [active] 212717006241 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 212717006242 active site 2 [active] 212717006243 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 212717006244 CoA-transferase family III; Region: CoA_transf_3; pfam02515 212717006245 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 212717006246 Peptidase family S41; Region: Peptidase_S41; pfam03572 212717006247 Active site serine [active] 212717006248 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 212717006249 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 212717006250 ATP binding site [chemical binding]; other site 212717006251 putative Mg++ binding site [ion binding]; other site 212717006252 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 212717006253 nucleotide binding region [chemical binding]; other site 212717006254 ATP-binding site [chemical binding]; other site 212717006255 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 212717006256 HRDC domain; Region: HRDC; pfam00570 212717006257 BioY family; Region: BioY; pfam02632 212717006258 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717006259 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717006260 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717006261 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 212717006262 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 212717006263 active site 212717006264 metal binding site [ion binding]; metal-binding site 212717006265 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 212717006266 Predicted periplasmic protein [Function unknown]; Region: COG3698 212717006267 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717006268 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717006269 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 212717006270 spore germination protein (amino acid permease); Region: 2A0309; TIGR00912 212717006271 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 212717006272 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 212717006273 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 212717006274 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 212717006275 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 212717006276 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 212717006277 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 212717006278 Walker A/P-loop; other site 212717006279 ATP binding site [chemical binding]; other site 212717006280 Q-loop/lid; other site 212717006281 ABC transporter signature motif; other site 212717006282 Walker B; other site 212717006283 D-loop; other site 212717006284 H-loop/switch region; other site 212717006285 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 212717006286 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 212717006287 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 212717006288 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 212717006289 N-acetyl-D-glucosamine binding site [chemical binding]; other site 212717006290 catalytic residue [active] 212717006291 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 212717006292 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 212717006293 CoA-binding site [chemical binding]; other site 212717006294 DNA polymerase I; Provisional; Region: PRK05755 212717006295 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 212717006296 active site 212717006297 metal binding site 1 [ion binding]; metal-binding site 212717006298 putative 5' ssDNA interaction site; other site 212717006299 metal binding site 3; metal-binding site 212717006300 metal binding site 2 [ion binding]; metal-binding site 212717006301 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 212717006302 putative DNA binding site [nucleotide binding]; other site 212717006303 putative metal binding site [ion binding]; other site 212717006304 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 212717006305 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 212717006306 active site 212717006307 DNA binding site [nucleotide binding] 212717006308 catalytic site [active] 212717006309 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 212717006310 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 212717006311 Tetramer interface [polypeptide binding]; other site 212717006312 active site 212717006313 FMN-binding site [chemical binding]; other site 212717006314 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 212717006315 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 212717006316 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 212717006317 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 212717006318 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 212717006319 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 212717006320 Phage XkdN-like protein; Region: XkdN; pfam08890 212717006321 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 212717006322 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 212717006323 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 212717006324 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 212717006325 Phage capsid family; Region: Phage_capsid; pfam05065 212717006326 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 212717006327 oligomer interface [polypeptide binding]; other site 212717006328 active site residues [active] 212717006329 Phage-related protein [Function unknown]; Region: COG4695 212717006330 Phage portal protein; Region: Phage_portal; pfam04860 212717006331 Phage Terminase; Region: Terminase_1; pfam03354 212717006332 Phage terminase, small subunit; Region: Terminase_4; cl01525 212717006333 HNH endonuclease; Region: HNH; pfam01844 212717006334 active site 212717006335 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 212717006336 YopX protein; Region: YopX; pfam09643 212717006337 Protein of unknown function (DUF968); Region: DUF968; pfam06147 212717006338 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u2; cd11539 212717006339 metal binding site [ion binding]; metal-binding site 212717006340 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 212717006341 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 212717006342 Recombinational DNA repair protein (RecE pathway) [DNA replication, recombination, and repair]; Region: RecT; COG3723 212717006343 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 212717006344 AntA/AntB antirepressor; Region: AntA; cl01430 212717006345 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 212717006346 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 212717006347 non-specific DNA binding site [nucleotide binding]; other site 212717006348 salt bridge; other site 212717006349 sequence-specific DNA binding site [nucleotide binding]; other site 212717006350 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 212717006351 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 212717006352 catalytic residues [active] 212717006353 catalytic nucleophile [active] 212717006354 Recombinase; Region: Recombinase; pfam07508 212717006355 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 212717006356 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 212717006357 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 212717006358 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_HBD; cd09277 212717006359 RNA/DNA hybrid binding site [nucleotide binding]; other site 212717006360 active site 212717006361 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 212717006362 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717006363 Walker A/P-loop; other site 212717006364 ATP binding site [chemical binding]; other site 212717006365 Q-loop/lid; other site 212717006366 ABC transporter signature motif; other site 212717006367 Walker B; other site 212717006368 D-loop; other site 212717006369 H-loop/switch region; other site 212717006370 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717006371 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 212717006372 dimerization interface [polypeptide binding]; other site 212717006373 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 212717006374 dimer interface [polypeptide binding]; other site 212717006375 phosphorylation site [posttranslational modification] 212717006376 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 212717006377 ATP binding site [chemical binding]; other site 212717006378 Mg2+ binding site [ion binding]; other site 212717006379 G-X-G motif; other site 212717006380 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 212717006381 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 212717006382 active site 212717006383 phosphorylation site [posttranslational modification] 212717006384 intermolecular recognition site; other site 212717006385 dimerization interface [polypeptide binding]; other site 212717006386 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 212717006387 DNA binding site [nucleotide binding] 212717006388 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 212717006389 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 212717006390 YoaP-like; Region: YoaP; pfam14268 212717006391 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 212717006392 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 212717006393 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 212717006394 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 212717006395 Ethanolamine utilisation protein, EutH; Region: EutH; pfam04346 212717006396 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 212717006397 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 212717006398 putative hexamer interface [polypeptide binding]; other site 212717006399 putative hexagonal pore; other site 212717006400 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 212717006401 putative hexamer interface [polypeptide binding]; other site 212717006402 putative hexagonal pore; other site 212717006403 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 212717006404 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 212717006405 Cell division protein FtsA; Region: FtsA; cl17206 212717006406 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 212717006407 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 212717006408 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 212717006409 Propanediol utilisation protein PduL; Region: PduL; pfam06130 212717006410 Propanediol utilisation protein PduL; Region: PduL; pfam06130 212717006411 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 212717006412 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 212717006413 putative catalytic cysteine [active] 212717006414 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 212717006415 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 212717006416 Hexamer interface [polypeptide binding]; other site 212717006417 Hexagonal pore residue; other site 212717006418 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 212717006419 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 212717006420 putative hexamer interface [polypeptide binding]; other site 212717006421 putative hexagonal pore; other site 212717006422 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 212717006423 Hexamer interface [polypeptide binding]; other site 212717006424 Hexagonal pore residue; other site 212717006425 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 212717006426 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 212717006427 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 212717006428 Ethanolamine utilisation protein EutA; Region: EutA; pfam06277 212717006429 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 212717006430 Protein of unknown function (DUF3160); Region: DUF3160; pfam11369 212717006431 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 212717006432 PAS domain S-box; Region: sensory_box; TIGR00229 212717006433 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 212717006434 Histidine kinase; Region: HisKA_2; pfam07568 212717006435 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 212717006436 ATP binding site [chemical binding]; other site 212717006437 Mg2+ binding site [ion binding]; other site 212717006438 G-X-G motif; other site 212717006439 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 212717006440 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 212717006441 active site 212717006442 phosphorylation site [posttranslational modification] 212717006443 intermolecular recognition site; other site 212717006444 dimerization interface [polypeptide binding]; other site 212717006445 ANTAR domain; Region: ANTAR; pfam03861 212717006446 Ethanolamine utilisation - propanediol utilisation; Region: PduV-EutP; pfam10662 212717006447 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 212717006448 G1 box; other site 212717006449 GTP/Mg2+ binding site [chemical binding]; other site 212717006450 Switch I region; other site 212717006451 G3 box; other site 212717006452 Switch II region; other site 212717006453 G4 box; other site 212717006454 G5 box; other site 212717006455 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 212717006456 putative hexamer interface [polypeptide binding]; other site 212717006457 putative hexagonal pore; other site 212717006458 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 212717006459 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 212717006460 putative active site [active] 212717006461 metal binding site [ion binding]; metal-binding site 212717006462 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 212717006463 helicase 45; Provisional; Region: PTZ00424 212717006464 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 212717006465 ATP binding site [chemical binding]; other site 212717006466 Mg++ binding site [ion binding]; other site 212717006467 motif III; other site 212717006468 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 212717006469 nucleotide binding region [chemical binding]; other site 212717006470 ATP-binding site [chemical binding]; other site 212717006471 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 212717006472 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 212717006473 active site 212717006474 metal binding site [ion binding]; metal-binding site 212717006475 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 212717006476 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 212717006477 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 212717006478 S-adenosylmethionine binding site [chemical binding]; other site 212717006479 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 212717006480 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 212717006481 ribonuclease Z; Region: RNase_Z; TIGR02651 212717006482 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 212717006483 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 212717006484 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 212717006485 dimer interface [polypeptide binding]; other site 212717006486 anticodon binding site; other site 212717006487 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 212717006488 homodimer interface [polypeptide binding]; other site 212717006489 motif 1; other site 212717006490 active site 212717006491 motif 2; other site 212717006492 GAD domain; Region: GAD; pfam02938 212717006493 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 212717006494 motif 3; other site 212717006495 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 212717006496 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 212717006497 FeS/SAM binding site; other site 212717006498 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 212717006499 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 212717006500 dimerization interface [polypeptide binding]; other site 212717006501 putative tRNAtyr binding site [nucleotide binding]; other site 212717006502 putative active site [active] 212717006503 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 212717006504 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 212717006505 Zn2+ binding site [ion binding]; other site 212717006506 Mg2+ binding site [ion binding]; other site 212717006507 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 212717006508 synthetase active site [active] 212717006509 NTP binding site [chemical binding]; other site 212717006510 metal binding site [ion binding]; metal-binding site 212717006511 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 212717006512 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 212717006513 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 212717006514 active site 212717006515 DHH family; Region: DHH; pfam01368 212717006516 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 212717006517 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 212717006518 Protein export membrane protein; Region: SecD_SecF; pfam02355 212717006519 protein-export membrane protein SecD; Region: secD; TIGR01129 212717006520 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 212717006521 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 212717006522 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 212717006523 FeS/SAM binding site; other site 212717006524 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 212717006525 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 212717006526 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 212717006527 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 212717006528 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 212717006529 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 212717006530 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 212717006531 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 212717006532 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 212717006533 Walker A motif; other site 212717006534 ATP binding site [chemical binding]; other site 212717006535 Walker B motif; other site 212717006536 arginine finger; other site 212717006537 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 212717006538 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 212717006539 RuvA N terminal domain; Region: RuvA_N; pfam01330 212717006540 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 212717006541 hypothetical protein; Validated; Region: PRK00110 212717006542 Uncharacterized conserved protein [Function unknown]; Region: COG1739 212717006543 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 212717006544 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 212717006545 HEAT-like repeat; Region: HEAT_EZ; pfam13513 212717006546 succinyldiaminopimelate transaminase; Region: DapC; TIGR03537 212717006547 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 212717006548 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212717006549 homodimer interface [polypeptide binding]; other site 212717006550 catalytic residue [active] 212717006551 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 212717006552 DNA-binding site [nucleotide binding]; DNA binding site 212717006553 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 212717006554 active site 212717006555 NTP binding site [chemical binding]; other site 212717006556 metal binding triad [ion binding]; metal-binding site 212717006557 antibiotic binding site [chemical binding]; other site 212717006558 pyruvate carboxylase; Reviewed; Region: PRK12999 212717006559 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 212717006560 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 212717006561 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 212717006562 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 212717006563 active site 212717006564 catalytic residues [active] 212717006565 metal binding site [ion binding]; metal-binding site 212717006566 homodimer binding site [polypeptide binding]; other site 212717006567 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 212717006568 carboxyltransferase (CT) interaction site; other site 212717006569 biotinylation site [posttranslational modification]; other site 212717006570 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 212717006571 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 212717006572 active site 212717006573 putative substrate binding pocket [chemical binding]; other site 212717006574 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 212717006575 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 212717006576 HflX GTPase family; Region: HflX; cd01878 212717006577 G1 box; other site 212717006578 GTP/Mg2+ binding site [chemical binding]; other site 212717006579 Switch I region; other site 212717006580 G2 box; other site 212717006581 G3 box; other site 212717006582 Switch II region; other site 212717006583 G4 box; other site 212717006584 G5 box; other site 212717006585 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 212717006586 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 212717006587 putative metal binding site [ion binding]; other site 212717006588 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 212717006589 Domain of unknown function (DUF4356); Region: DUF4356; pfam14266 212717006590 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 212717006591 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 212717006592 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 212717006593 putative metal binding site [ion binding]; other site 212717006594 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 212717006595 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 212717006596 putative metal binding site [ion binding]; other site 212717006597 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 212717006598 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 212717006599 putative metal binding site [ion binding]; other site 212717006600 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 212717006601 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 212717006602 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 212717006603 active site 212717006604 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 212717006605 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 212717006606 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 212717006607 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 212717006608 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 212717006609 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 212717006610 active site 212717006611 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 212717006612 Transglycosylase; Region: Transgly; pfam00912 212717006613 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 212717006614 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 212717006615 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 212717006616 stage V sporulation protein AD; Validated; Region: PRK08304 212717006617 stage V sporulation protein AD; Provisional; Region: PRK12404 212717006618 stage V sporulation protein AC; Region: spore_V_AC; TIGR02838 212717006619 sporulation sigma factor SigF; Validated; Region: PRK05572 212717006620 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 212717006621 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 212717006622 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 212717006623 DNA binding residues [nucleotide binding] 212717006624 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 212717006625 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 212717006626 ATP binding site [chemical binding]; other site 212717006627 Mg2+ binding site [ion binding]; other site 212717006628 G-X-G motif; other site 212717006629 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 212717006630 anti sigma factor interaction site; other site 212717006631 regulatory phosphorylation site [posttranslational modification]; other site 212717006632 spermidine synthase; Provisional; Region: PRK00811 212717006633 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 212717006634 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 212717006635 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 212717006636 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 212717006637 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 212717006638 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 212717006639 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 212717006640 NodB motif; other site 212717006641 active site 212717006642 catalytic site [active] 212717006643 Cd binding site [ion binding]; other site 212717006644 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 212717006645 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 212717006646 Bacterial sugar transferase; Region: Bac_transf; pfam02397 212717006647 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 212717006648 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 212717006649 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 212717006650 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 212717006651 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 212717006652 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 212717006653 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 212717006654 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 212717006655 O-Antigen ligase; Region: Wzy_C; cl04850 212717006656 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 212717006657 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 212717006658 Ligand binding site; other site 212717006659 O-Antigen ligase; Region: Wzy_C; cl04850 212717006660 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 212717006661 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 212717006662 integral membrane protein MviN; Region: mviN; TIGR01695 212717006663 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 212717006664 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 212717006665 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 212717006666 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 212717006667 putative trimer interface [polypeptide binding]; other site 212717006668 putative CoA binding site [chemical binding]; other site 212717006669 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 212717006670 putative trimer interface [polypeptide binding]; other site 212717006671 putative active site [active] 212717006672 putative substrate binding site [chemical binding]; other site 212717006673 putative CoA binding site [chemical binding]; other site 212717006674 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 212717006675 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 212717006676 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 212717006677 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 212717006678 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 212717006679 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 212717006680 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 212717006681 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 212717006682 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 212717006683 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 212717006684 NAD(P) binding site [chemical binding]; other site 212717006685 homodimer interface [polypeptide binding]; other site 212717006686 substrate binding site [chemical binding]; other site 212717006687 active site 212717006688 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 212717006689 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 212717006690 active site 212717006691 tetramer interface; other site 212717006692 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 212717006693 binding surface 212717006694 Tetratricopeptide repeat; Region: TPR_12; pfam13424 212717006695 TPR motif; other site 212717006696 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 212717006697 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 212717006698 homodimer interface [polypeptide binding]; other site 212717006699 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212717006700 catalytic residue [active] 212717006701 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 212717006702 Protein of unknown function (DUF523); Region: DUF523; pfam04463 212717006703 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 212717006704 MutS domain III; Region: MutS_III; pfam05192 212717006705 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 212717006706 Walker A/P-loop; other site 212717006707 ATP binding site [chemical binding]; other site 212717006708 Q-loop/lid; other site 212717006709 ABC transporter signature motif; other site 212717006710 Walker B; other site 212717006711 D-loop; other site 212717006712 H-loop/switch region; other site 212717006713 Smr domain; Region: Smr; pfam01713 212717006714 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 212717006715 Peptidase family U32; Region: Peptidase_U32; pfam01136 212717006716 Collagenase; Region: DUF3656; pfam12392 212717006717 Peptidase family U32; Region: Peptidase_U32; cl03113 212717006718 Cell division protein ZapA; Region: ZapA; pfam05164 212717006719 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 212717006720 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 212717006721 putative tRNA-binding site [nucleotide binding]; other site 212717006722 B3/4 domain; Region: B3_4; pfam03483 212717006723 tRNA synthetase B5 domain; Region: B5; smart00874 212717006724 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 212717006725 dimer interface [polypeptide binding]; other site 212717006726 motif 1; other site 212717006727 motif 3; other site 212717006728 motif 2; other site 212717006729 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 212717006730 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 212717006731 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 212717006732 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 212717006733 dimer interface [polypeptide binding]; other site 212717006734 motif 1; other site 212717006735 active site 212717006736 motif 2; other site 212717006737 motif 3; other site 212717006738 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 212717006739 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 212717006740 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 212717006741 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 212717006742 TrkA-N domain; Region: TrkA_N; pfam02254 212717006743 TrkA-C domain; Region: TrkA_C; pfam02080 212717006744 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 212717006745 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 212717006746 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 212717006747 23S rRNA binding site [nucleotide binding]; other site 212717006748 L21 binding site [polypeptide binding]; other site 212717006749 L13 binding site [polypeptide binding]; other site 212717006750 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 212717006751 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 212717006752 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 212717006753 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 212717006754 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 212717006755 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 212717006756 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 212717006757 active site 212717006758 dimer interface [polypeptide binding]; other site 212717006759 motif 1; other site 212717006760 motif 2; other site 212717006761 motif 3; other site 212717006762 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 212717006763 anticodon binding site; other site 212717006764 putative sporulation protein YtxC; Region: spo_ytxC; TIGR02834 212717006765 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 212717006766 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 212717006767 putative dimer interface [polypeptide binding]; other site 212717006768 active site pocket [active] 212717006769 putative cataytic base [active] 212717006770 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 212717006771 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 212717006772 dimerization interface [polypeptide binding]; other site 212717006773 domain crossover interface; other site 212717006774 redox-dependent activation switch; other site 212717006775 Methyltransferase domain; Region: Methyltransf_31; pfam13847 212717006776 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 212717006777 S-adenosylmethionine binding site [chemical binding]; other site 212717006778 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 212717006779 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 212717006780 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 212717006781 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 212717006782 dimer interface [polypeptide binding]; other site 212717006783 active site 212717006784 catalytic residue [active] 212717006785 dihydrodipicolinate reductase; Provisional; Region: PRK00048 212717006786 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 212717006787 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 212717006788 single-stranded DNA-binding protein; Provisional; Region: PRK05813 212717006789 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 212717006790 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 212717006791 dimer interface [polypeptide binding]; other site 212717006792 ssDNA binding site [nucleotide binding]; other site 212717006793 tetramer (dimer of dimers) interface [polypeptide binding]; other site 212717006794 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 212717006795 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 212717006796 NodB motif; other site 212717006797 active site 212717006798 catalytic site [active] 212717006799 metal binding site [ion binding]; metal-binding site 212717006800 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 212717006801 Uncharacterized conserved protein [Function unknown]; Region: COG3391 212717006802 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 212717006803 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 212717006804 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 212717006805 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 212717006806 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 212717006807 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 212717006808 active site 212717006809 HIGH motif; other site 212717006810 nucleotide binding site [chemical binding]; other site 212717006811 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 212717006812 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 212717006813 active site 212717006814 KMSKS motif; other site 212717006815 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 212717006816 tRNA binding surface [nucleotide binding]; other site 212717006817 anticodon binding site; other site 212717006818 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 212717006819 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 212717006820 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 212717006821 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 212717006822 Potassium binding sites [ion binding]; other site 212717006823 Cesium cation binding sites [ion binding]; other site 212717006824 glutamate formiminotransferase; Region: FtcD; TIGR02024 212717006825 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 212717006826 Formiminotransferase domain; Region: FTCD; pfam02971 212717006827 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 212717006828 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 212717006829 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 212717006830 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 212717006831 Predicted permease [General function prediction only]; Region: COG2056 212717006832 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 212717006833 Predicted permease [General function prediction only]; Region: COG2056 212717006834 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 212717006835 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 212717006836 Uncharacterized conserved protein [Function unknown]; Region: COG2966 212717006837 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 212717006838 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 212717006839 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 212717006840 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 212717006841 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 212717006842 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 212717006843 metal binding site [ion binding]; metal-binding site 212717006844 dimer interface [polypeptide binding]; other site 212717006845 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 212717006846 active sites [active] 212717006847 tetramer interface [polypeptide binding]; other site 212717006848 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 212717006849 Predicted ATPase [General function prediction only]; Region: COG3899 212717006850 AAA ATPase domain; Region: AAA_16; pfam13191 212717006851 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 212717006852 binding surface 212717006853 TPR motif; other site 212717006854 imidazolonepropionase; Validated; Region: PRK09356 212717006855 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 212717006856 active site 212717006857 urocanate hydratase; Provisional; Region: PRK05414 212717006858 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 212717006859 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 212717006860 active site 212717006861 phosphorylation site [posttranslational modification] 212717006862 intermolecular recognition site; other site 212717006863 dimerization interface [polypeptide binding]; other site 212717006864 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 212717006865 Walker A motif; other site 212717006866 ATP binding site [chemical binding]; other site 212717006867 Walker B motif; other site 212717006868 arginine finger; other site 212717006869 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 212717006870 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 212717006871 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 212717006872 substrate binding pocket [chemical binding]; other site 212717006873 membrane-bound complex binding site; other site 212717006874 hinge residues; other site 212717006875 sensory histidine kinase AtoS; Provisional; Region: PRK11360 212717006876 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 212717006877 dimer interface [polypeptide binding]; other site 212717006878 phosphorylation site [posttranslational modification] 212717006879 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 212717006880 ATP binding site [chemical binding]; other site 212717006881 Mg2+ binding site [ion binding]; other site 212717006882 G-X-G motif; other site 212717006883 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 212717006884 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 212717006885 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 212717006886 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 212717006887 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 212717006888 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 212717006889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 212717006890 ATP synthase subunit D; Region: ATP-synt_D; pfam01813 212717006891 V-type ATP synthase subunit B; Provisional; Region: PRK04196 212717006892 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 212717006893 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 212717006894 Walker A motif homologous position; other site 212717006895 Walker B motif; other site 212717006896 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 212717006897 V-type ATP synthase subunit A; Provisional; Region: PRK04192 212717006898 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 212717006899 Walker A motif/ATP binding site; other site 212717006900 Walker B motif; other site 212717006901 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 212717006902 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 212717006903 V-type ATP synthase subunit I; Validated; Region: PRK05771 212717006904 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 212717006905 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 212717006906 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 212717006907 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 212717006908 binding surface 212717006909 TPR repeat; Region: TPR_11; pfam13414 212717006910 TPR motif; other site 212717006911 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 212717006912 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 212717006913 RecX family; Region: RecX; cl00936 212717006914 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 212717006915 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 212717006916 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 212717006917 QueT transporter; Region: QueT; pfam06177 212717006918 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 212717006919 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 212717006920 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 212717006921 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 212717006922 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 212717006923 dimer interface [polypeptide binding]; other site 212717006924 conserved gate region; other site 212717006925 putative PBP binding loops; other site 212717006926 ABC-ATPase subunit interface; other site 212717006927 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 212717006928 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 212717006929 Walker A/P-loop; other site 212717006930 ATP binding site [chemical binding]; other site 212717006931 Q-loop/lid; other site 212717006932 ABC transporter signature motif; other site 212717006933 Walker B; other site 212717006934 D-loop; other site 212717006935 H-loop/switch region; other site 212717006936 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 212717006937 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 212717006938 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 212717006939 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 212717006940 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 212717006941 active site 212717006942 catalytic triad [active] 212717006943 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 212717006944 active site 212717006945 catalytic triad [active] 212717006946 Transcriptional regulators [Transcription]; Region: PurR; COG1609 212717006947 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 212717006948 DNA binding site [nucleotide binding] 212717006949 domain linker motif; other site 212717006950 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 212717006951 dimerization interface [polypeptide binding]; other site 212717006952 ligand binding site [chemical binding]; other site 212717006953 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 212717006954 ligand binding site [chemical binding]; other site 212717006955 dimerization interface [polypeptide binding]; other site 212717006956 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 212717006957 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 212717006958 TM-ABC transporter signature motif; other site 212717006959 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 212717006960 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717006961 Walker A/P-loop; other site 212717006962 ATP binding site [chemical binding]; other site 212717006963 Q-loop/lid; other site 212717006964 ABC transporter signature motif; other site 212717006965 Walker B; other site 212717006966 D-loop; other site 212717006967 H-loop/switch region; other site 212717006968 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 212717006969 D-ribose pyranase; Provisional; Region: PRK11797 212717006970 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 212717006971 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 212717006972 substrate binding site [chemical binding]; other site 212717006973 dimer interface [polypeptide binding]; other site 212717006974 ATP binding site [chemical binding]; other site 212717006975 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 212717006976 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 212717006977 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 212717006978 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 212717006979 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 212717006980 active site 212717006981 metal binding site [ion binding]; metal-binding site 212717006982 homotetramer interface [polypeptide binding]; other site 212717006983 homoserine dehydrogenase; Provisional; Region: PRK06349 212717006984 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 212717006985 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 212717006986 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 212717006987 aspartate kinase; Reviewed; Region: PRK09034 212717006988 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 212717006989 nucleotide binding site [chemical binding]; other site 212717006990 substrate binding site [chemical binding]; other site 212717006991 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 212717006992 allosteric regulatory residue; other site 212717006993 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 212717006994 homoserine kinase; Provisional; Region: PRK01212 212717006995 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 212717006996 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 212717006997 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 212717006998 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 212717006999 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212717007000 catalytic residue [active] 212717007001 Hemerythrin; Region: Hemerythrin; cd12107 212717007002 Fe binding site [ion binding]; other site 212717007003 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 212717007004 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 212717007005 intersubunit interface [polypeptide binding]; other site 212717007006 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 212717007007 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 212717007008 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 212717007009 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 212717007010 ABC-ATPase subunit interface; other site 212717007011 dimer interface [polypeptide binding]; other site 212717007012 putative PBP binding regions; other site 212717007013 ferric uptake regulator; Provisional; Region: fur; PRK09462 212717007014 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 212717007015 metal binding site 2 [ion binding]; metal-binding site 212717007016 putative DNA binding helix; other site 212717007017 metal binding site 1 [ion binding]; metal-binding site 212717007018 dimer interface [polypeptide binding]; other site 212717007019 structural Zn2+ binding site [ion binding]; other site 212717007020 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 212717007021 GTP/Mg2+ binding site [chemical binding]; other site 212717007022 Switch I region; other site 212717007023 G2 box; other site 212717007024 G3 box; other site 212717007025 Switch II region; other site 212717007026 G4 box; other site 212717007027 G5 box; other site 212717007028 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 212717007029 Found in ATP-dependent protease La (LON); Region: LON; smart00464 212717007030 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 212717007031 Walker A motif; other site 212717007032 ATP binding site [chemical binding]; other site 212717007033 Walker B motif; other site 212717007034 arginine finger; other site 212717007035 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 212717007036 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 212717007037 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 212717007038 Walker A motif; other site 212717007039 ATP binding site [chemical binding]; other site 212717007040 Walker B motif; other site 212717007041 arginine finger; other site 212717007042 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 212717007043 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 212717007044 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 212717007045 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 212717007046 Walker A motif; other site 212717007047 ATP binding site [chemical binding]; other site 212717007048 Walker B motif; other site 212717007049 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 212717007050 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 212717007051 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 212717007052 oligomer interface [polypeptide binding]; other site 212717007053 active site residues [active] 212717007054 trigger factor; Provisional; Region: tig; PRK01490 212717007055 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 212717007056 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 212717007057 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 212717007058 active site 212717007059 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 212717007060 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 212717007061 heterodimer interface [polypeptide binding]; other site 212717007062 active site 212717007063 FMN binding site [chemical binding]; other site 212717007064 homodimer interface [polypeptide binding]; other site 212717007065 substrate binding site [chemical binding]; other site 212717007066 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 212717007067 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 212717007068 FAD binding pocket [chemical binding]; other site 212717007069 FAD binding motif [chemical binding]; other site 212717007070 phosphate binding motif [ion binding]; other site 212717007071 beta-alpha-beta structure motif; other site 212717007072 NAD binding pocket [chemical binding]; other site 212717007073 Iron coordination center [ion binding]; other site 212717007074 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 212717007075 active site 212717007076 dimer interface [polypeptide binding]; other site 212717007077 dihydroorotase; Validated; Region: pyrC; PRK09357 212717007078 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 212717007079 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 212717007080 active site 212717007081 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 212717007082 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 212717007083 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 212717007084 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 212717007085 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 212717007086 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 212717007087 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 212717007088 active site 212717007089 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 212717007090 active site 212717007091 metal binding site [ion binding]; metal-binding site 212717007092 homotetramer interface [polypeptide binding]; other site 212717007093 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 212717007094 active site 212717007095 dimerization interface [polypeptide binding]; other site 212717007096 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 212717007097 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 212717007098 GatB domain; Region: GatB_Yqey; smart00845 212717007099 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 212717007100 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 212717007101 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 212717007102 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 212717007103 nucleotide binding pocket [chemical binding]; other site 212717007104 K-X-D-G motif; other site 212717007105 catalytic site [active] 212717007106 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 212717007107 Helix-hairpin-helix motif; Region: HHH; pfam00633 212717007108 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 212717007109 Dimer interface [polypeptide binding]; other site 212717007110 BRCT sequence motif; other site 212717007111 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 212717007112 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 212717007113 Family description; Region: UvrD_C_2; pfam13538 212717007114 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 212717007115 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 212717007116 metal binding site [ion binding]; metal-binding site 212717007117 dimer interface [polypeptide binding]; other site 212717007118 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 212717007119 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 212717007120 putative metal binding site [ion binding]; other site 212717007121 dimer interface [polypeptide binding]; other site 212717007122 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 212717007123 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 212717007124 RNA binding surface [nucleotide binding]; other site 212717007125 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 212717007126 active site 212717007127 uracil binding [chemical binding]; other site 212717007128 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 212717007129 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 212717007130 N-acetyl-D-glucosamine binding site [chemical binding]; other site 212717007131 catalytic residue [active] 212717007132 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 212717007133 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 212717007134 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 212717007135 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 212717007136 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 212717007137 hypothetical protein; Validated; Region: PRK00124 212717007138 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 212717007139 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 212717007140 active site 212717007141 dimer interface [polypeptide binding]; other site 212717007142 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 212717007143 dimer interface [polypeptide binding]; other site 212717007144 active site 212717007145 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 212717007146 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 212717007147 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 212717007148 MarR family; Region: MarR_2; pfam12802 212717007149 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 212717007150 GMP synthase; Reviewed; Region: guaA; PRK00074 212717007151 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 212717007152 AMP/PPi binding site [chemical binding]; other site 212717007153 candidate oxyanion hole; other site 212717007154 catalytic triad [active] 212717007155 potential glutamine specificity residues [chemical binding]; other site 212717007156 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 212717007157 ATP Binding subdomain [chemical binding]; other site 212717007158 Ligand Binding sites [chemical binding]; other site 212717007159 Dimerization subdomain; other site 212717007160 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 212717007161 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 212717007162 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 212717007163 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 212717007164 active site 212717007165 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 212717007166 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 212717007167 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 212717007168 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 212717007169 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 212717007170 ring oligomerisation interface [polypeptide binding]; other site 212717007171 ATP/Mg binding site [chemical binding]; other site 212717007172 stacking interactions; other site 212717007173 hinge regions; other site 212717007174 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 212717007175 Uncharacterized conserved protein [Function unknown]; Region: COG0398 212717007176 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 212717007177 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 212717007178 4Fe-4S binding domain; Region: Fer4; pfam00037 212717007179 4Fe-4S binding domain; Region: Fer4; pfam00037 212717007180 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 212717007181 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 212717007182 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 212717007183 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 212717007184 helix-hairpin-helix signature motif; other site 212717007185 substrate binding pocket [chemical binding]; other site 212717007186 active site 212717007187 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 212717007188 putative oxidoreductase; Provisional; Region: PRK12831 212717007189 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 212717007190 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 212717007191 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 212717007192 FAD/NAD binding domain in the 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)...; Region: DHOD_e_trans_like1; cd06219 212717007193 FAD binding pocket [chemical binding]; other site 212717007194 FAD binding motif [chemical binding]; other site 212717007195 phosphate binding motif [ion binding]; other site 212717007196 beta-alpha-beta structure motif; other site 212717007197 NAD binding pocket [chemical binding]; other site 212717007198 Iron coordination center [ion binding]; other site 212717007199 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 212717007200 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 212717007201 putative active site [active] 212717007202 metal binding site [ion binding]; metal-binding site 212717007203 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 212717007204 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 212717007205 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 212717007206 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 212717007207 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 212717007208 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 212717007209 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 212717007210 Ligand binding site [chemical binding]; other site 212717007211 Electron transfer flavoprotein domain; Region: ETF; pfam01012 212717007212 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 212717007213 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 212717007214 FAD binding site [chemical binding]; other site 212717007215 homotetramer interface [polypeptide binding]; other site 212717007216 substrate binding pocket [chemical binding]; other site 212717007217 catalytic base [active] 212717007218 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 212717007219 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 212717007220 substrate binding site [chemical binding]; other site 212717007221 oxyanion hole (OAH) forming residues; other site 212717007222 trimer interface [polypeptide binding]; other site 212717007223 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 212717007224 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 212717007225 CoA binding domain; Region: CoA_binding; pfam02629 212717007226 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 212717007227 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 212717007228 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 212717007229 ABC transporter; Region: ABC_tran_2; pfam12848 212717007230 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 212717007231 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 212717007232 EamA-like transporter family; Region: EamA; pfam00892 212717007233 EamA-like transporter family; Region: EamA; pfam00892 212717007234 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 212717007235 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 212717007236 UGMP family protein; Validated; Region: PRK09604 212717007237 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 212717007238 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 212717007239 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 212717007240 Protein of unknown function (DUF1667); Region: DUF1667; pfam07892 212717007241 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 212717007242 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 212717007243 Predicted dehydrogenase [General function prediction only]; Region: COG0579 212717007244 hydroxyglutarate oxidase; Provisional; Region: PRK11728 212717007245 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 212717007246 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 212717007247 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 212717007248 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 212717007249 intersubunit interface [polypeptide binding]; other site 212717007250 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 212717007251 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 212717007252 Glycoprotease family; Region: Peptidase_M22; pfam00814 212717007253 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 212717007254 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 212717007255 Coenzyme A binding pocket [chemical binding]; other site 212717007256 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 212717007257 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 212717007258 active site 212717007259 HIGH motif; other site 212717007260 dimer interface [polypeptide binding]; other site 212717007261 KMSKS motif; other site 212717007262 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 212717007263 RNA binding surface [nucleotide binding]; other site 212717007264 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 212717007265 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 212717007266 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 212717007267 spore germination protein (amino acid permease); Region: 2A0309; TIGR00912 212717007268 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 212717007269 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 212717007270 G1 box; other site 212717007271 putative GEF interaction site [polypeptide binding]; other site 212717007272 GTP/Mg2+ binding site [chemical binding]; other site 212717007273 Switch I region; other site 212717007274 G2 box; other site 212717007275 G3 box; other site 212717007276 Switch II region; other site 212717007277 G4 box; other site 212717007278 G5 box; other site 212717007279 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 212717007280 sugar phosphate phosphatase; Provisional; Region: PRK10513 212717007281 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 212717007282 active site 212717007283 motif I; other site 212717007284 motif II; other site 212717007285 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 212717007286 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 212717007287 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 212717007288 active site 212717007289 HIGH motif; other site 212717007290 dimer interface [polypeptide binding]; other site 212717007291 KMSKS motif; other site 212717007292 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 212717007293 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 212717007294 non-heme iron binding site [ion binding]; other site 212717007295 dimer interface [polypeptide binding]; other site 212717007296 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 212717007297 non-heme iron binding site [ion binding]; other site 212717007298 dimer interface [polypeptide binding]; other site 212717007299 Putative glucoamylase; Region: Glycoamylase; pfam10091 212717007300 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 212717007301 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 212717007302 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 212717007303 diaminopimelate decarboxylase; Region: lysA; TIGR01048 212717007304 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 212717007305 active site 212717007306 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 212717007307 substrate binding site [chemical binding]; other site 212717007308 catalytic residues [active] 212717007309 dimer interface [polypeptide binding]; other site 212717007310 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 212717007311 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 212717007312 active site 212717007313 metal binding site [ion binding]; metal-binding site 212717007314 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 212717007315 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 212717007316 hypothetical protein; Provisional; Region: PRK06851 212717007317 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 212717007318 Walker A motif; other site 212717007319 ATP binding site [chemical binding]; other site 212717007320 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 212717007321 Part of AAA domain; Region: AAA_19; pfam13245 212717007322 Family description; Region: UvrD_C_2; pfam13538 212717007323 FtsH Extracellular; Region: FtsH_ext; pfam06480 212717007324 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 212717007325 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 212717007326 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 212717007327 Walker A motif; other site 212717007328 ATP binding site [chemical binding]; other site 212717007329 Walker B motif; other site 212717007330 arginine finger; other site 212717007331 Peptidase family M41; Region: Peptidase_M41; pfam01434 212717007332 glycerol kinase; Provisional; Region: glpK; PRK00047 212717007333 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 212717007334 N- and C-terminal domain interface [polypeptide binding]; other site 212717007335 active site 212717007336 MgATP binding site [chemical binding]; other site 212717007337 catalytic site [active] 212717007338 metal binding site [ion binding]; metal-binding site 212717007339 glycerol binding site [chemical binding]; other site 212717007340 homotetramer interface [polypeptide binding]; other site 212717007341 homodimer interface [polypeptide binding]; other site 212717007342 FBP binding site [chemical binding]; other site 212717007343 protein IIAGlc interface [polypeptide binding]; other site 212717007344 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 212717007345 Malic enzyme, N-terminal domain; Region: malic; pfam00390 212717007346 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 212717007347 putative NAD(P) binding site [chemical binding]; other site 212717007348 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 212717007349 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 212717007350 metal binding site [ion binding]; metal-binding site 212717007351 Predicted membrane protein [Function unknown]; Region: COG1288 212717007352 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 212717007353 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 212717007354 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 212717007355 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 212717007356 DNA-binding site [nucleotide binding]; DNA binding site 212717007357 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 212717007358 FCD domain; Region: FCD; pfam07729 212717007359 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 212717007360 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 212717007361 putative dimer interface [polypeptide binding]; other site 212717007362 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 212717007363 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 212717007364 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 212717007365 Ligand binding site; other site 212717007366 metal-binding site 212717007367 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 212717007368 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 212717007369 catalytic loop [active] 212717007370 iron binding site [ion binding]; other site 212717007371 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 212717007372 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 212717007373 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 212717007374 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 212717007375 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 212717007376 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 212717007377 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 212717007378 heme binding pocket [chemical binding]; other site 212717007379 heme ligand [chemical binding]; other site 212717007380 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 212717007381 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 212717007382 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 212717007383 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 212717007384 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 212717007385 S-adenosylmethionine binding site [chemical binding]; other site 212717007386 Protein of unknown function (DUF554); Region: DUF554; pfam04474 212717007387 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 212717007388 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 212717007389 4Fe-4S binding domain; Region: Fer4; pfam00037 212717007390 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 212717007391 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 212717007392 FAD binding pocket [chemical binding]; other site 212717007393 FAD binding motif [chemical binding]; other site 212717007394 phosphate binding motif [ion binding]; other site 212717007395 beta-alpha-beta structure motif; other site 212717007396 NAD binding pocket [chemical binding]; other site 212717007397 Iron coordination center [ion binding]; other site 212717007398 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 212717007399 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 212717007400 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 212717007401 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 212717007402 ligand binding site [chemical binding]; other site 212717007403 flexible hinge region; other site 212717007404 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 212717007405 non-specific DNA interactions [nucleotide binding]; other site 212717007406 DNA binding site [nucleotide binding] 212717007407 sequence specific DNA binding site [nucleotide binding]; other site 212717007408 putative cAMP binding site [chemical binding]; other site 212717007409 pyruvate kinase; Provisional; Region: PRK06354 212717007410 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 212717007411 domain interfaces; other site 212717007412 active site 212717007413 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 212717007414 6-phosphofructokinase; Provisional; Region: PRK03202 212717007415 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 212717007416 active site 212717007417 ADP/pyrophosphate binding site [chemical binding]; other site 212717007418 dimerization interface [polypeptide binding]; other site 212717007419 allosteric effector site; other site 212717007420 fructose-1,6-bisphosphate binding site; other site 212717007421 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 212717007422 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 212717007423 active site 212717007424 PHP Thumb interface [polypeptide binding]; other site 212717007425 metal binding site [ion binding]; metal-binding site 212717007426 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 212717007427 generic binding surface II; other site 212717007428 generic binding surface I; other site 212717007429 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 212717007430 DRTGG domain; Region: DRTGG; pfam07085 212717007431 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 212717007432 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 212717007433 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 212717007434 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 212717007435 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 212717007436 putative substrate binding pocket [chemical binding]; other site 212717007437 dimer interface [polypeptide binding]; other site 212717007438 phosphate binding site [ion binding]; other site 212717007439 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 212717007440 AAA domain; Region: AAA_18; pfam13238 212717007441 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 212717007442 FAD binding domain; Region: FAD_binding_4; pfam01565 212717007443 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 212717007444 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 212717007445 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 212717007446 GIY-YIG motif/motif A; other site 212717007447 active site 212717007448 catalytic site [active] 212717007449 putative DNA binding site [nucleotide binding]; other site 212717007450 metal binding site [ion binding]; metal-binding site 212717007451 UvrB/uvrC motif; Region: UVR; pfam02151 212717007452 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 212717007453 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 212717007454 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 212717007455 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 212717007456 generic binding surface II; other site 212717007457 generic binding surface I; other site 212717007458 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 212717007459 Zn2+ binding site [ion binding]; other site 212717007460 Mg2+ binding site [ion binding]; other site 212717007461 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 212717007462 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 212717007463 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 212717007464 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 212717007465 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 212717007466 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 212717007467 phosphopeptide binding site; other site 212717007468 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 212717007469 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 212717007470 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 212717007471 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 212717007472 excinuclease ABC subunit B; Provisional; Region: PRK05298 212717007473 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 212717007474 ATP binding site [chemical binding]; other site 212717007475 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 212717007476 nucleotide binding region [chemical binding]; other site 212717007477 ATP-binding site [chemical binding]; other site 212717007478 Ultra-violet resistance protein B; Region: UvrB; pfam12344 212717007479 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 212717007480 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 212717007481 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 212717007482 C-terminal peptidase (prc); Region: prc; TIGR00225 212717007483 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 212717007484 protein binding site [polypeptide binding]; other site 212717007485 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 212717007486 Catalytic dyad [active] 212717007487 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 212717007488 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 212717007489 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 212717007490 ATP-binding cassette domain of the cell division transporter; Region: ABC_FtsE_transporter; cd03292 212717007491 Walker A/P-loop; other site 212717007492 ATP binding site [chemical binding]; other site 212717007493 Q-loop/lid; other site 212717007494 ABC transporter signature motif; other site 212717007495 Walker B; other site 212717007496 D-loop; other site 212717007497 H-loop/switch region; other site 212717007498 Uncharacterized conserved protein [Function unknown]; Region: COG1284 212717007499 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 212717007500 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 212717007501 alanine racemase; Reviewed; Region: alr; PRK00053 212717007502 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 212717007503 active site 212717007504 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 212717007505 dimer interface [polypeptide binding]; other site 212717007506 substrate binding site [chemical binding]; other site 212717007507 catalytic residues [active] 212717007508 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 212717007509 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 212717007510 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 212717007511 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 212717007512 putative substrate binding site [chemical binding]; other site 212717007513 putative ATP binding site [chemical binding]; other site 212717007514 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 212717007515 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 212717007516 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 212717007517 Rubredoxin [Energy production and conversion]; Region: COG1773 212717007518 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 212717007519 iron binding site [ion binding]; other site 212717007520 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 212717007521 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 212717007522 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 212717007523 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 212717007524 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 212717007525 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 212717007526 NAD(P) binding site [chemical binding]; other site 212717007527 catalytic residues [active] 212717007528 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 212717007529 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 212717007530 putative substrate binding site [chemical binding]; other site 212717007531 nucleotide binding site [chemical binding]; other site 212717007532 nucleotide binding site [chemical binding]; other site 212717007533 homodimer interface [polypeptide binding]; other site 212717007534 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 212717007535 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 212717007536 TPP-binding site [chemical binding]; other site 212717007537 putative dimer interface [polypeptide binding]; other site 212717007538 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 212717007539 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 212717007540 dimer interface [polypeptide binding]; other site 212717007541 PYR/PP interface [polypeptide binding]; other site 212717007542 TPP binding site [chemical binding]; other site 212717007543 substrate binding site [chemical binding]; other site 212717007544 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 212717007545 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 212717007546 2-oxoacid:acceptor oxidoreductase, gamma subunit, pyruvate/2-ketoisovalerate family; Region: PorC_KorC; TIGR02175 212717007547 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 212717007548 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 212717007549 methionine gamma-lyase; Provisional; Region: PRK06234 212717007550 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 212717007551 homodimer interface [polypeptide binding]; other site 212717007552 substrate-cofactor binding pocket; other site 212717007553 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212717007554 catalytic residue [active] 212717007555 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 212717007556 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 212717007557 putative aromatic amino acid binding site; other site 212717007558 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 212717007559 Walker A motif; other site 212717007560 ATP binding site [chemical binding]; other site 212717007561 Walker B motif; other site 212717007562 arginine finger; other site 212717007563 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 212717007564 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 212717007565 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 212717007566 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 212717007567 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 212717007568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 212717007569 NAD(P) binding site [chemical binding]; other site 212717007570 active site 212717007571 putative hydrolase; Validated; Region: PRK09248 212717007572 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 212717007573 active site 212717007574 coproporphyrinogen III oxidase; Validated; Region: PRK08208 212717007575 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 212717007576 FeS/SAM binding site; other site 212717007577 HemN C-terminal domain; Region: HemN_C; pfam06969 212717007578 Sulfatase; Region: Sulfatase; cl17466 212717007579 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 212717007580 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 212717007581 glutaminase active site [active] 212717007582 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 212717007583 dimer interface [polypeptide binding]; other site 212717007584 active site 212717007585 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 212717007586 dimer interface [polypeptide binding]; other site 212717007587 active site 212717007588 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 212717007589 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 212717007590 active site 212717007591 substrate binding site [chemical binding]; other site 212717007592 metal binding site [ion binding]; metal-binding site 212717007593 butyrate kinase; Provisional; Region: PRK03011 212717007594 phosphate butyryltransferase; Validated; Region: PRK05805 212717007595 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 212717007596 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 212717007597 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 212717007598 YbbR-like protein; Region: YbbR; pfam07949 212717007599 YbbR-like protein; Region: YbbR; pfam07949 212717007600 Uncharacterized conserved protein [Function unknown]; Region: COG1624 212717007601 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 212717007602 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 212717007603 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 212717007604 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 212717007605 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 212717007606 catalytic residues [active] 212717007607 Tetratricopeptide repeat; Region: TPR_12; pfam13424 212717007608 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 212717007609 holo-ACP synthase CitX; Region: citrate_citX; TIGR03124 212717007610 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 212717007611 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 212717007612 putative active site [active] 212717007613 (T/H)XGH motif; other site 212717007614 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 212717007615 Coenzyme A transferase; Region: CoA_trans; cl17247 212717007616 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 212717007617 fumarate hydratase; Provisional; Region: PRK06842 212717007618 fumarate hydratase; Provisional; Region: PRK06246 212717007619 methylaspartate ammonia-lyase; Region: B_methylAsp_ase; TIGR01502 212717007620 Methylaspartate ammonia lyase (3-methylaspartase, MAL) is a homodimeric enzyme, catalyzing the magnesium-dependent reversible alpha,beta-elimination of ammonia from L-threo-(2S,3S)-3-methylaspartic acid to mesaconic acid. This reaction is part of the...; Region: MAL; cd03314 212717007621 dimer interface [polypeptide binding]; other site 212717007622 active site 212717007623 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cd00245 212717007624 substrate binding site [chemical binding]; other site 212717007625 B12 cofactor binding site [chemical binding]; other site 212717007626 heterodimer (sigma-epsilon) interface [polypeptide binding]; other site 212717007627 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 212717007628 conserved hypothetical protein; Region: glmL_fam; TIGR01319 212717007629 B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'...; Region: Glm_B12_BD; cd02072 212717007630 B12 binding site [chemical binding]; other site 212717007631 heterodimer interface [polypeptide binding]; other site 212717007632 cobalt ligand [ion binding]; other site 212717007633 Predicted transcriptional regulators [Transcription]; Region: COG1725 212717007634 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 212717007635 DNA-binding site [nucleotide binding]; DNA binding site 212717007636 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 212717007637 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 212717007638 active site 212717007639 metal binding site [ion binding]; metal-binding site 212717007640 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 212717007641 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 212717007642 23S rRNA interface [nucleotide binding]; other site 212717007643 L3 interface [polypeptide binding]; other site 212717007644 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 212717007645 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 212717007646 dimerization interface 3.5A [polypeptide binding]; other site 212717007647 active site 212717007648 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 212717007649 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 212717007650 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 212717007651 Walker A/P-loop; other site 212717007652 ATP binding site [chemical binding]; other site 212717007653 Q-loop/lid; other site 212717007654 ABC transporter signature motif; other site 212717007655 Walker B; other site 212717007656 D-loop; other site 212717007657 H-loop/switch region; other site 212717007658 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 212717007659 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 212717007660 Walker A/P-loop; other site 212717007661 ATP binding site [chemical binding]; other site 212717007662 Q-loop/lid; other site 212717007663 ABC transporter signature motif; other site 212717007664 Walker B; other site 212717007665 D-loop; other site 212717007666 H-loop/switch region; other site 212717007667 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 212717007668 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 212717007669 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 212717007670 alphaNTD - beta interaction site [polypeptide binding]; other site 212717007671 alphaNTD homodimer interface [polypeptide binding]; other site 212717007672 alphaNTD - beta' interaction site [polypeptide binding]; other site 212717007673 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 212717007674 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 212717007675 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 212717007676 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 212717007677 RNA binding surface [nucleotide binding]; other site 212717007678 Uncharacterized protein conserved in archaea (DUF2113); Region: DUF2113; cl01670 212717007679 30S ribosomal protein S11; Validated; Region: PRK05309 212717007680 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 212717007681 30S ribosomal protein S13; Region: bact_S13; TIGR03631 212717007682 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 212717007683 rRNA binding site [nucleotide binding]; other site 212717007684 predicted 30S ribosome binding site; other site 212717007685 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 212717007686 active site 212717007687 adenylate kinase; Reviewed; Region: adk; PRK00279 212717007688 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 212717007689 AMP-binding site [chemical binding]; other site 212717007690 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 212717007691 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 212717007692 SecY translocase; Region: SecY; pfam00344 212717007693 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 212717007694 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 212717007695 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 212717007696 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 212717007697 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 212717007698 23S rRNA interface [nucleotide binding]; other site 212717007699 L21e interface [polypeptide binding]; other site 212717007700 5S rRNA interface [nucleotide binding]; other site 212717007701 L27 interface [polypeptide binding]; other site 212717007702 L5 interface [polypeptide binding]; other site 212717007703 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 212717007704 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 212717007705 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 212717007706 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 212717007707 30S ribosomal protein S14 212717007708 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 212717007709 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 212717007710 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 212717007711 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 212717007712 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 212717007713 RNA binding site [nucleotide binding]; other site 212717007714 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 212717007715 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 212717007716 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 212717007717 23S rRNA interface [nucleotide binding]; other site 212717007718 putative translocon interaction site; other site 212717007719 signal recognition particle (SRP54) interaction site; other site 212717007720 L23 interface [polypeptide binding]; other site 212717007721 trigger factor interaction site; other site 212717007722 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 212717007723 23S rRNA interface [nucleotide binding]; other site 212717007724 5S rRNA interface [nucleotide binding]; other site 212717007725 putative antibiotic binding site [chemical binding]; other site 212717007726 L25 interface [polypeptide binding]; other site 212717007727 L27 interface [polypeptide binding]; other site 212717007728 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 212717007729 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 212717007730 G-X-X-G motif; other site 212717007731 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 212717007732 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 212717007733 putative translocon binding site; other site 212717007734 protein-rRNA interface [nucleotide binding]; other site 212717007735 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 212717007736 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 212717007737 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 212717007738 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 212717007739 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 212717007740 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 212717007741 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 212717007742 elongation factor Tu; Reviewed; Region: PRK00049 212717007743 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 212717007744 G1 box; other site 212717007745 GEF interaction site [polypeptide binding]; other site 212717007746 GTP/Mg2+ binding site [chemical binding]; other site 212717007747 Switch I region; other site 212717007748 G2 box; other site 212717007749 G3 box; other site 212717007750 Switch II region; other site 212717007751 G4 box; other site 212717007752 G5 box; other site 212717007753 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 212717007754 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 212717007755 Antibiotic Binding Site [chemical binding]; other site 212717007756 elongation factor G; Reviewed; Region: PRK00007 212717007757 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 212717007758 G1 box; other site 212717007759 putative GEF interaction site [polypeptide binding]; other site 212717007760 GTP/Mg2+ binding site [chemical binding]; other site 212717007761 Switch I region; other site 212717007762 G2 box; other site 212717007763 G3 box; other site 212717007764 Switch II region; other site 212717007765 G4 box; other site 212717007766 G5 box; other site 212717007767 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 212717007768 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 212717007769 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 212717007770 30S ribosomal protein S7; Validated; Region: PRK05302 212717007771 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 212717007772 S17 interaction site [polypeptide binding]; other site 212717007773 S8 interaction site; other site 212717007774 16S rRNA interaction site [nucleotide binding]; other site 212717007775 streptomycin interaction site [chemical binding]; other site 212717007776 23S rRNA interaction site [nucleotide binding]; other site 212717007777 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 212717007778 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 212717007779 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 212717007780 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 212717007781 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 212717007782 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 212717007783 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 212717007784 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 212717007785 G-loop; other site 212717007786 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 212717007787 DNA binding site [nucleotide binding] 212717007788 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 212717007789 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 212717007790 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 212717007791 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 212717007792 RPB1 interaction site [polypeptide binding]; other site 212717007793 RPB10 interaction site [polypeptide binding]; other site 212717007794 RPB11 interaction site [polypeptide binding]; other site 212717007795 RPB3 interaction site [polypeptide binding]; other site 212717007796 RPB12 interaction site [polypeptide binding]; other site 212717007797 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 212717007798 23S rRNA interface [nucleotide binding]; other site 212717007799 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 212717007800 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 212717007801 mRNA/rRNA interface [nucleotide binding]; other site 212717007802 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 212717007803 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 212717007804 23S rRNA interface [nucleotide binding]; other site 212717007805 L7/L12 interface [polypeptide binding]; other site 212717007806 putative thiostrepton binding site; other site 212717007807 L25 interface [polypeptide binding]; other site 212717007808 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 212717007809 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 212717007810 putative homodimer interface [polypeptide binding]; other site 212717007811 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 212717007812 heterodimer interface [polypeptide binding]; other site 212717007813 homodimer interface [polypeptide binding]; other site 212717007814 elongation factor Tu; Reviewed; Region: PRK00049 212717007815 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 212717007816 G1 box; other site 212717007817 GEF interaction site [polypeptide binding]; other site 212717007818 GTP/Mg2+ binding site [chemical binding]; other site 212717007819 Switch I region; other site 212717007820 G2 box; other site 212717007821 G3 box; other site 212717007822 Switch II region; other site 212717007823 G4 box; other site 212717007824 G5 box; other site 212717007825 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 212717007826 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 212717007827 Antibiotic Binding Site [chemical binding]; other site 212717007828 RNA polymerase sigma-H factor; Region: spore_sigH; TIGR02859 212717007829 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 212717007830 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 212717007831 YacP-like NYN domain; Region: NYN_YacP; pfam05991 212717007832 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 212717007833 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 212717007834 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 212717007835 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 212717007836 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 212717007837 active site 212717007838 metal binding site [ion binding]; metal-binding site 212717007839 dimerization interface [polypeptide binding]; other site 212717007840 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 212717007841 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 212717007842 active site 212717007843 HIGH motif; other site 212717007844 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 212717007845 KMSKS motif; other site 212717007846 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 212717007847 tRNA binding surface [nucleotide binding]; other site 212717007848 anticodon binding site; other site 212717007849 threonine dehydratase; Provisional; Region: PRK08198 212717007850 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 212717007851 tetramer interface [polypeptide binding]; other site 212717007852 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212717007853 catalytic residue [active] 212717007854 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 212717007855 prolyl-tRNA synthetase; Provisional; Region: PRK09194 212717007856 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 212717007857 dimer interface [polypeptide binding]; other site 212717007858 motif 1; other site 212717007859 active site 212717007860 motif 2; other site 212717007861 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 212717007862 putative deacylase active site [active] 212717007863 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 212717007864 active site 212717007865 motif 3; other site 212717007866 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 212717007867 anticodon binding site; other site 212717007868 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 212717007869 substrate binding site; other site 212717007870 dimer interface; other site 212717007871 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 212717007872 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 212717007873 putative active site [active] 212717007874 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 212717007875 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 212717007876 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 212717007877 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 212717007878 DNA repair protein RadA; Provisional; Region: PRK11823 212717007879 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 212717007880 Walker A motif/ATP binding site; other site 212717007881 ATP binding site [chemical binding]; other site 212717007882 Walker B motif; other site 212717007883 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 212717007884 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 212717007885 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 212717007886 active site 212717007887 trimer interface [polypeptide binding]; other site 212717007888 allosteric site; other site 212717007889 active site lid [active] 212717007890 hexamer (dimer of trimers) interface [polypeptide binding]; other site 212717007891 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 212717007892 Clp amino terminal domain; Region: Clp_N; pfam02861 212717007893 Clp amino terminal domain; Region: Clp_N; pfam02861 212717007894 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 212717007895 Walker A motif; other site 212717007896 ATP binding site [chemical binding]; other site 212717007897 Walker B motif; other site 212717007898 arginine finger; other site 212717007899 UvrB/uvrC motif; Region: UVR; pfam02151 212717007900 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 212717007901 Walker A motif; other site 212717007902 ATP binding site [chemical binding]; other site 212717007903 Walker B motif; other site 212717007904 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 212717007905 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 212717007906 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 212717007907 ADP binding site [chemical binding]; other site 212717007908 phosphagen binding site; other site 212717007909 substrate specificity loop; other site 212717007910 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 212717007911 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 212717007912 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 212717007913 catalytic core [active] 212717007914 Rubrerythrin [Energy production and conversion]; Region: COG1592 212717007915 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 212717007916 binuclear metal center [ion binding]; other site 212717007917 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 212717007918 iron binding site [ion binding]; other site 212717007919 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 212717007920 elongation factor G; Reviewed; Region: PRK12740 212717007921 G1 box; other site 212717007922 putative GEF interaction site [polypeptide binding]; other site 212717007923 GTP/Mg2+ binding site [chemical binding]; other site 212717007924 Switch I region; other site 212717007925 G2 box; other site 212717007926 G3 box; other site 212717007927 Switch II region; other site 212717007928 G4 box; other site 212717007929 G5 box; other site 212717007930 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 212717007931 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 212717007932 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 212717007933 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 212717007934 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 212717007935 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 212717007936 Protein of unknown function (DUF2762); Region: DUF2762; pfam10960 212717007937 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 212717007938 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 212717007939 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 212717007940 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 212717007941 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 212717007942 Mg binding site [ion binding]; other site 212717007943 nucleotide binding site [chemical binding]; other site 212717007944 putative protofilament interface [polypeptide binding]; other site 212717007945 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 212717007946 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 212717007947 Walker A/P-loop; other site 212717007948 ATP binding site [chemical binding]; other site 212717007949 Q-loop/lid; other site 212717007950 ABC transporter signature motif; other site 212717007951 Walker B; other site 212717007952 D-loop; other site 212717007953 H-loop/switch region; other site 212717007954 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 212717007955 FtsX-like permease family; Region: FtsX; pfam02687 212717007956 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 212717007957 FtsX-like permease family; Region: FtsX; pfam02687 212717007958 Probable transposase; Region: OrfB_IS605; pfam01385 212717007959 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 212717007960 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 212717007961 Probable transposase; Region: OrfB_IS605; pfam01385 212717007962 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 212717007963 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 212717007964 Transposase IS200 like; Region: Y1_Tnp; pfam01797 212717007965 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 212717007966 Peptidase family M28; Region: Peptidase_M28; pfam04389 212717007967 metal binding site [ion binding]; metal-binding site 212717007968 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 212717007969 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 212717007970 active site 212717007971 phosphorylation site [posttranslational modification] 212717007972 intermolecular recognition site; other site 212717007973 dimerization interface [polypeptide binding]; other site 212717007974 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 212717007975 DNA binding site [nucleotide binding] 212717007976 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 212717007977 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 212717007978 ATP binding site [chemical binding]; other site 212717007979 Mg2+ binding site [ion binding]; other site 212717007980 G-X-G motif; other site 212717007981 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 212717007982 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 212717007983 Walker A/P-loop; other site 212717007984 ATP binding site [chemical binding]; other site 212717007985 Q-loop/lid; other site 212717007986 ABC transporter signature motif; other site 212717007987 Walker B; other site 212717007988 D-loop; other site 212717007989 H-loop/switch region; other site 212717007990 FtsX-like permease family; Region: FtsX; pfam02687 212717007991 Methyltransferase domain; Region: Methyltransf_31; pfam13847 212717007992 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 212717007993 S-adenosylmethionine binding site [chemical binding]; other site 212717007994 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212717007995 ABC transporter signature motif; other site 212717007996 Walker B; other site 212717007997 D-loop; other site 212717007998 H-loop/switch region; other site 212717007999 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 212717008000 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 212717008001 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 212717008002 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 212717008003 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 212717008004 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 212717008005 Walker A/P-loop; other site 212717008006 ATP binding site [chemical binding]; other site 212717008007 Q-loop/lid; other site 212717008008 ABC transporter signature motif; other site 212717008009 Walker B; other site 212717008010 D-loop; other site 212717008011 H-loop/switch region; other site 212717008012 Transposase IS200 like; Region: Y1_Tnp; pfam01797 212717008013 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 212717008014 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 212717008015 active site 212717008016 NTP binding site [chemical binding]; other site 212717008017 metal binding triad [ion binding]; metal-binding site 212717008018 Domain of unknown function (DUF4184); Region: DUF4184; pfam13803 212717008019 INT_SG3, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 3, catalytic domain. The CD contains various predicted bacterial and phage integrase/recombinase sequences for which not much experimental characterization is available; Region: INT_SG3_C; cd01186 212717008020 Int/Topo IB signature motif; other site 212717008021 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 212717008022 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 212717008023 Walker A/P-loop; other site 212717008024 ATP binding site [chemical binding]; other site 212717008025 Q-loop/lid; other site 212717008026 ABC transporter signature motif; other site 212717008027 Walker B; other site 212717008028 D-loop; other site 212717008029 H-loop/switch region; other site 212717008030 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 212717008031 FtsX-like permease family; Region: FtsX; pfam02687 212717008032 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 212717008033 amidase catalytic site [active] 212717008034 Zn binding residues [ion binding]; other site 212717008035 substrate binding site [chemical binding]; other site 212717008036 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 212717008037 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 212717008038 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 212717008039 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 212717008040 metal binding site [ion binding]; metal-binding site 212717008041 Clostridial neurotoxin zinc protease; Region: Peptidase_M27; pfam01742 212717008042 Clostridium neurotoxin, Translocation domain; Region: Toxin_trans; pfam07952 212717008043 Clostridium neurotoxin, N-terminal receptor binding; Region: Toxin_R_bind_N; pfam07953 212717008044 Clostridium neurotoxin, C-terminal receptor binding; Region: Toxin_R_bind_C; pfam07951 212717008045 clostridium toxin-associated regulator BotR; Region: P21_Cbot; TIGR03209 212717008046 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 212717008047 DNA binding residues [nucleotide binding]