-- dump date 20140619_124939 -- class Genbank::misc_feature -- table misc_feature_note -- id note 314315000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 314315000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 314315000003 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 314315000004 Walker A motif; other site 314315000005 ATP binding site [chemical binding]; other site 314315000006 Walker B motif; other site 314315000007 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 314315000008 arginine finger; other site 314315000009 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 314315000010 DnaA box-binding interface [nucleotide binding]; other site 314315000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 314315000012 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 314315000013 putative DNA binding surface [nucleotide binding]; other site 314315000014 dimer interface [polypeptide binding]; other site 314315000015 beta-clamp/clamp loader binding surface; other site 314315000016 beta-clamp/translesion DNA polymerase binding surface; other site 314315000017 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 314315000018 recombination protein F; Reviewed; Region: recF; PRK00064 314315000019 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 314315000020 Walker A/P-loop; other site 314315000021 ATP binding site [chemical binding]; other site 314315000022 Q-loop/lid; other site 314315000023 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315000024 ABC transporter signature motif; other site 314315000025 Walker B; other site 314315000026 D-loop; other site 314315000027 H-loop/switch region; other site 314315000028 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 314315000029 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 314315000030 Mg2+ binding site [ion binding]; other site 314315000031 G-X-G motif; other site 314315000032 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 314315000033 anchoring element; other site 314315000034 dimer interface [polypeptide binding]; other site 314315000035 ATP binding site [chemical binding]; other site 314315000036 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 314315000037 active site 314315000038 metal binding site [ion binding]; metal-binding site 314315000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 314315000040 DNA gyrase subunit A; Validated; Region: PRK05560 314315000041 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 314315000042 CAP-like domain; other site 314315000043 active site 314315000044 primary dimer interface [polypeptide binding]; other site 314315000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 314315000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 314315000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 314315000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 314315000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 314315000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 314315000051 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 314315000052 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 314315000053 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 314315000054 dimer interface [polypeptide binding]; other site 314315000055 ssDNA binding site [nucleotide binding]; other site 314315000056 tetramer (dimer of dimers) interface [polypeptide binding]; other site 314315000057 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 314315000058 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 314315000059 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 314315000060 DHH family; Region: DHH; pfam01368 314315000061 DHHA1 domain; Region: DHHA1; pfam02272 314315000062 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 314315000063 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 314315000064 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 314315000065 replicative DNA helicase; Provisional; Region: PRK05748 314315000066 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 314315000067 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 314315000068 Walker A motif; other site 314315000069 ATP binding site [chemical binding]; other site 314315000070 Walker B motif; other site 314315000071 DNA binding loops [nucleotide binding] 314315000072 xanthine permease; Region: pbuX; TIGR03173 314315000073 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 314315000074 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 314315000075 S-adenosylmethionine binding site [chemical binding]; other site 314315000076 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 314315000077 ParB-like nuclease domain; Region: ParBc; pfam02195 314315000078 KorB domain; Region: KorB; pfam08535 314315000079 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 314315000080 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 314315000081 P-loop; other site 314315000082 Magnesium ion binding site [ion binding]; other site 314315000083 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 314315000084 Magnesium ion binding site [ion binding]; other site 314315000085 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 314315000086 ParB-like nuclease domain; Region: ParB; smart00470 314315000087 KorB domain; Region: KorB; pfam08535 314315000088 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 314315000089 GTP-binding protein YchF; Reviewed; Region: PRK09601 314315000090 YchF GTPase; Region: YchF; cd01900 314315000091 G1 box; other site 314315000092 GTP/Mg2+ binding site [chemical binding]; other site 314315000093 Switch I region; other site 314315000094 G2 box; other site 314315000095 Switch II region; other site 314315000096 G3 box; other site 314315000097 G4 box; other site 314315000098 G5 box; other site 314315000099 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 314315000100 Protein of unknown function (DUF1129); Region: DUF1129; pfam06570 314315000101 esterase; Provisional; Region: PRK10566 314315000102 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 314315000103 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 314315000104 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 314315000105 motif II; other site 314315000106 flavoprotein NrdI; Provisional; Region: PRK02551 314315000107 Predicted membrane protein [Function unknown]; Region: COG2323 314315000108 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 314315000109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 314315000110 EDD domain protein, DegV family; Region: DegV; TIGR00762 314315000111 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 314315000112 Domain of unknown function DUF21; Region: DUF21; pfam01595 314315000113 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 314315000114 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 314315000115 Transporter associated domain; Region: CorC_HlyC; smart01091 314315000116 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 314315000117 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 314315000118 active site 314315000119 catalytic tetrad [active] 314315000120 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 314315000121 Uncharacterized conserved protein [Function unknown]; Region: COG3410 314315000122 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 314315000123 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 314315000124 epoxyqueuosine reductase; Region: TIGR00276 314315000125 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 314315000126 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 314315000127 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 314315000128 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 314315000129 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 314315000130 Cl binding site [ion binding]; other site 314315000131 oligomer interface [polypeptide binding]; other site 314315000132 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 314315000133 Ligand Binding Site [chemical binding]; other site 314315000134 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 314315000135 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 314315000136 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 314315000137 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 314315000138 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 314315000139 Ligand Binding Site [chemical binding]; other site 314315000140 anaerobic ribonucleoside-triphosphate reductase; Region: RNR_anaer_Bdell; TIGR02827 314315000141 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 314315000142 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 314315000143 S-adenosylmethionine binding site [chemical binding]; other site 314315000144 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 314315000145 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314315000146 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 314315000147 non-specific DNA binding site [nucleotide binding]; other site 314315000148 salt bridge; other site 314315000149 sequence-specific DNA binding site [nucleotide binding]; other site 314315000150 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 314315000151 salt bridge; other site 314315000152 non-specific DNA binding site [nucleotide binding]; other site 314315000153 sequence-specific DNA binding site [nucleotide binding]; other site 314315000154 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 314315000155 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 314315000156 ATP-grasp domain; Region: ATP-grasp_4; cl17255 314315000157 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 314315000158 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 314315000159 putative dimer interface [polypeptide binding]; other site 314315000160 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 314315000161 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315000162 Walker A/P-loop; other site 314315000163 ATP binding site [chemical binding]; other site 314315000164 Q-loop/lid; other site 314315000165 ABC transporter signature motif; other site 314315000166 Walker B; other site 314315000167 D-loop; other site 314315000168 H-loop/switch region; other site 314315000169 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 314315000170 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 314315000171 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 314315000172 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 314315000173 active site 314315000174 Zn binding site [ion binding]; other site 314315000175 maltose O-acetyltransferase; Provisional; Region: PRK10092 314315000176 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 314315000177 active site 314315000178 substrate binding site [chemical binding]; other site 314315000179 trimer interface [polypeptide binding]; other site 314315000180 CoA binding site [chemical binding]; other site 314315000181 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 314315000182 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 314315000183 thiamine phosphate binding site [chemical binding]; other site 314315000184 active site 314315000185 pyrophosphate binding site [ion binding]; other site 314315000186 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 314315000187 substrate binding site [chemical binding]; other site 314315000188 dimer interface [polypeptide binding]; other site 314315000189 ATP binding site [chemical binding]; other site 314315000190 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 314315000191 substrate binding site [chemical binding]; other site 314315000192 multimerization interface [polypeptide binding]; other site 314315000193 ATP binding site [chemical binding]; other site 314315000194 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 314315000195 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 314315000196 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 314315000197 active site turn [active] 314315000198 phosphorylation site [posttranslational modification] 314315000199 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 314315000200 HPr interaction site; other site 314315000201 glycerol kinase (GK) interaction site [polypeptide binding]; other site 314315000202 active site 314315000203 phosphorylation site [posttranslational modification] 314315000204 Predicted secreted protein [Function unknown]; Region: COG4086 314315000205 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 314315000206 VanZ like family; Region: VanZ; cl01971 314315000207 RDD family; Region: RDD; pfam06271 314315000208 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 314315000209 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 314315000210 GDP-binding site [chemical binding]; other site 314315000211 ACT binding site; other site 314315000212 IMP binding site; other site 314315000213 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 314315000214 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 314315000215 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the...; Region: Sortase_A_1; cd06165 314315000216 active site 314315000217 catalytic site [active] 314315000218 putrescine carbamoyltransferase; Provisional; Region: PRK02255 314315000219 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 314315000220 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 314315000221 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 314315000222 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 314315000223 agmatine deiminase; Provisional; Region: PRK13551 314315000224 agmatine deiminase; Region: agmatine_aguA; TIGR03380 314315000225 carbamate kinase; Reviewed; Region: PRK12686 314315000226 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 314315000227 putative substrate binding site [chemical binding]; other site 314315000228 nucleotide binding site [chemical binding]; other site 314315000229 nucleotide binding site [chemical binding]; other site 314315000230 homodimer interface [polypeptide binding]; other site 314315000231 agmatine deiminase; Provisional; Region: PRK13551 314315000232 agmatine deiminase; Region: agmatine_aguA; TIGR03380 314315000233 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 314315000234 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 314315000235 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 314315000236 putative active site [active] 314315000237 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314315000238 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 314315000239 non-specific DNA binding site [nucleotide binding]; other site 314315000240 salt bridge; other site 314315000241 sequence-specific DNA binding site [nucleotide binding]; other site 314315000242 multiple promoter invertase; Provisional; Region: mpi; PRK13413 314315000243 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 314315000244 catalytic residues [active] 314315000245 catalytic nucleophile [active] 314315000246 Presynaptic Site I dimer interface [polypeptide binding]; other site 314315000247 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 314315000248 Synaptic Flat tetramer interface [polypeptide binding]; other site 314315000249 Synaptic Site I dimer interface [polypeptide binding]; other site 314315000250 DNA binding site [nucleotide binding] 314315000251 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 314315000252 DNA-binding interface [nucleotide binding]; DNA binding site 314315000253 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314315000254 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 314315000255 active site 314315000256 phosphorylation site [posttranslational modification] 314315000257 intermolecular recognition site; other site 314315000258 dimerization interface [polypeptide binding]; other site 314315000259 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 314315000260 DNA binding site [nucleotide binding] 314315000261 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 314315000262 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 314315000263 dimerization interface [polypeptide binding]; other site 314315000264 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 314315000265 putative active site [active] 314315000266 heme pocket [chemical binding]; other site 314315000267 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 314315000268 dimer interface [polypeptide binding]; other site 314315000269 phosphorylation site [posttranslational modification] 314315000270 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 314315000271 ATP binding site [chemical binding]; other site 314315000272 Mg2+ binding site [ion binding]; other site 314315000273 G-X-G motif; other site 314315000274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 314315000275 YycH protein; Region: YycH; pfam07435 314315000276 YycH protein; Region: YycI; pfam09648 314315000277 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 314315000278 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 314315000279 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 314315000280 protein binding site [polypeptide binding]; other site 314315000281 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 314315000282 short chain dehydrogenase; Validated; Region: PRK08324 314315000283 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 314315000284 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 314315000285 active site 314315000286 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 314315000287 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 314315000288 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 314315000289 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 314315000290 active site 314315000291 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 314315000292 EamA-like transporter family; Region: EamA; pfam00892 314315000293 EamA-like transporter family; Region: EamA; pfam00892 314315000294 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 314315000295 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 314315000296 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 314315000297 Uncharacterized conserved protein [Function unknown]; Region: COG1284 314315000298 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 314315000299 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 314315000300 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 314315000301 benzoate transport; Region: 2A0115; TIGR00895 314315000302 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 314315000303 putative substrate translocation pore; other site 314315000304 Predicted membrane protein [Function unknown]; Region: COG1288 314315000305 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 314315000306 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 314315000307 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 314315000308 Catalytic site [active] 314315000309 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 314315000310 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 314315000311 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 314315000312 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 314315000313 aspartate racemase; Region: asp_race; TIGR00035 314315000314 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 314315000315 catalytic core [active] 314315000316 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 314315000317 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 314315000318 Beta-lactamase; Region: Beta-lactamase; pfam00144 314315000319 VanZ like family; Region: VanZ; cl01971 314315000320 Transcriptional regulators [Transcription]; Region: MarR; COG1846 314315000321 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 314315000322 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 314315000323 dimer interface [polypeptide binding]; other site 314315000324 catalytic triad [active] 314315000325 peroxidatic and resolving cysteines [active] 314315000326 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 314315000327 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 314315000328 NlpC/P60 family; Region: NLPC_P60; pfam00877 314315000329 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 314315000330 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 314315000331 catalytic site [active] 314315000332 G-X2-G-X-G-K; other site 314315000333 ferric uptake regulator; Provisional; Region: fur; PRK09462 314315000334 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 314315000335 metal binding site 2 [ion binding]; metal-binding site 314315000336 putative DNA binding helix; other site 314315000337 metal binding site 1 [ion binding]; metal-binding site 314315000338 dimer interface [polypeptide binding]; other site 314315000339 structural Zn2+ binding site [ion binding]; other site 314315000340 Mga helix-turn-helix domain; Region: Mga; pfam05043 314315000341 Cna protein B-type domain; Region: Cna_B; pfam05738 314315000342 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 314315000343 Cna protein B-type domain; Region: Cna_B; pfam05738 314315000344 Cna protein B-type domain; Region: Cna_B; pfam05738 314315000345 Cna protein B-type domain; Region: Cna_B; pfam05738 314315000346 Cna protein B-type domain; Region: Cna_B; pfam05738 314315000347 Cna protein B-type domain; Region: Cna_B; pfam05738 314315000348 Cna protein B-type domain; Region: Cna_B; pfam05738 314315000349 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 314315000350 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 314315000351 HflX GTPase family; Region: HflX; cd01878 314315000352 G1 box; other site 314315000353 GTP/Mg2+ binding site [chemical binding]; other site 314315000354 Switch I region; other site 314315000355 G2 box; other site 314315000356 G3 box; other site 314315000357 Switch II region; other site 314315000358 G4 box; other site 314315000359 G5 box; other site 314315000360 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 314315000361 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 314315000362 dimer interface [polypeptide binding]; other site 314315000363 active site 314315000364 metal binding site [ion binding]; metal-binding site 314315000365 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 314315000366 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 314315000367 nucleotide binding site [chemical binding]; other site 314315000368 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 314315000369 inner membrane transporter YjeM; Provisional; Region: PRK15238 314315000370 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 314315000371 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 314315000372 Walker A/P-loop; other site 314315000373 ATP binding site [chemical binding]; other site 314315000374 Q-loop/lid; other site 314315000375 ABC transporter signature motif; other site 314315000376 Walker B; other site 314315000377 D-loop; other site 314315000378 H-loop/switch region; other site 314315000379 FtsX-like permease family; Region: FtsX; pfam02687 314315000380 Glucuronate isomerase; Region: UxaC; pfam02614 314315000381 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 314315000382 Transcriptional regulators [Transcription]; Region: PurR; COG1609 314315000383 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 314315000384 DNA binding site [nucleotide binding] 314315000385 domain linker motif; other site 314315000386 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 314315000387 dimerization interface [polypeptide binding]; other site 314315000388 ligand binding site [chemical binding]; other site 314315000389 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 314315000390 catalytic core [active] 314315000391 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 314315000392 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 314315000393 MarR family; Region: MarR_2; cl17246 314315000394 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 314315000395 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 314315000396 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 314315000397 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 314315000398 TrkA-C domain; Region: TrkA_C; pfam02080 314315000399 CrcB-like protein; Region: CRCB; pfam02537 314315000400 CrcB-like protein; Region: CRCB; pfam02537 314315000401 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 314315000402 Part of AAA domain; Region: AAA_19; pfam13245 314315000403 Family description; Region: UvrD_C_2; pfam13538 314315000404 pantothenate kinase; Provisional; Region: PRK05439 314315000405 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 314315000406 ATP-binding site [chemical binding]; other site 314315000407 CoA-binding site [chemical binding]; other site 314315000408 Mg2+-binding site [ion binding]; other site 314315000409 GMP synthase; Reviewed; Region: guaA; PRK00074 314315000410 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 314315000411 AMP/PPi binding site [chemical binding]; other site 314315000412 candidate oxyanion hole; other site 314315000413 catalytic triad [active] 314315000414 potential glutamine specificity residues [chemical binding]; other site 314315000415 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 314315000416 ATP Binding subdomain [chemical binding]; other site 314315000417 Dimerization subdomain; other site 314315000418 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 314315000419 Helix-turn-helix domain; Region: HTH_38; pfam13936 314315000420 Integrase core domain; Region: rve; pfam00665 314315000421 DNA adenine methylase (dam); Region: dam; TIGR00571 314315000422 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 314315000423 HTH-like domain; Region: HTH_21; pfam13276 314315000424 Integrase core domain; Region: rve; pfam00665 314315000425 Integrase core domain; Region: rve_2; pfam13333 314315000426 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 314315000427 Transposase; Region: HTH_Tnp_1; pfam01527 314315000428 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 314315000429 DNA methylase; Region: N6_N4_Mtase; pfam01555 314315000430 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 314315000431 putative active site [active] 314315000432 catalytic site [active] 314315000433 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 314315000434 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 314315000435 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 314315000436 putative Mg++ binding site [ion binding]; other site 314315000437 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 314315000438 nucleotide binding region [chemical binding]; other site 314315000439 ATP-binding site [chemical binding]; other site 314315000440 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 314315000441 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315000442 Walker A/P-loop; other site 314315000443 ATP binding site [chemical binding]; other site 314315000444 Domain of unknown function (DUF303); Region: DUF303; pfam03629 314315000445 Predicted transcriptional regulators [Transcription]; Region: COG1695 314315000446 Transcriptional regulator PadR-like family; Region: PadR; cl17335 314315000447 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 314315000448 hypothetical protein; Provisional; Region: PRK10621 314315000449 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314315000450 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 314315000451 non-specific DNA binding site [nucleotide binding]; other site 314315000452 salt bridge; other site 314315000453 sequence-specific DNA binding site [nucleotide binding]; other site 314315000454 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 314315000455 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 314315000456 motif II; other site 314315000457 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 314315000458 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 314315000459 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 314315000460 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 314315000461 YheO-like PAS domain; Region: PAS_6; pfam08348 314315000462 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 314315000463 DNA-binding interface [nucleotide binding]; DNA binding site 314315000464 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314315000465 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 314315000466 NAD(P) binding site [chemical binding]; other site 314315000467 active site 314315000468 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 314315000469 dimerization interface [polypeptide binding]; other site 314315000470 putative DNA binding site [nucleotide binding]; other site 314315000471 putative Zn2+ binding site [ion binding]; other site 314315000472 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 314315000473 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 314315000474 Ligand binding site; other site 314315000475 metal-binding site 314315000476 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 314315000477 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 314315000478 Ligand binding site; other site 314315000479 metal-binding site 314315000480 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 314315000481 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 314315000482 oxidoreductase; Provisional; Region: PRK07985 314315000483 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314315000484 NAD(P) binding site [chemical binding]; other site 314315000485 active site 314315000486 Predicted membrane protein [Function unknown]; Region: COG2261 314315000487 Asp23 family; Region: Asp23; pfam03780 314315000488 Asp23 family; Region: Asp23; pfam03780 314315000489 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 314315000490 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 314315000491 tetramer interface [polypeptide binding]; other site 314315000492 heme binding pocket [chemical binding]; other site 314315000493 NADPH binding site [chemical binding]; other site 314315000494 WxL domain surface cell wall-binding; Region: WxL; pfam13731 314315000495 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 314315000496 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 314315000497 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 314315000498 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 314315000499 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 314315000500 WxL domain surface cell wall-binding; Region: WxL; pfam13731 314315000501 MarR family; Region: MarR_2; cl17246 314315000502 Peptidase family C69; Region: Peptidase_C69; pfam03577 314315000503 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 314315000504 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 314315000505 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 314315000506 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 314315000507 ABC-ATPase subunit interface; other site 314315000508 dimer interface [polypeptide binding]; other site 314315000509 putative PBP binding regions; other site 314315000510 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 314315000511 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 314315000512 metal binding site [ion binding]; metal-binding site 314315000513 Isochorismatase family; Region: Isochorismatase; pfam00857 314315000514 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 314315000515 catalytic triad [active] 314315000516 conserved cis-peptide bond; other site 314315000517 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 314315000518 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 314315000519 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 314315000520 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 314315000521 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314315000522 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314315000523 amino acid transporter; Region: 2A0306; TIGR00909 314315000524 Spore germination protein; Region: Spore_permease; cl17796 314315000525 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 314315000526 YibE/F-like protein; Region: YibE_F; pfam07907 314315000527 YibE/F-like protein; Region: YibE_F; cl02259 314315000528 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 314315000529 NlpC/P60 family; Region: NLPC_P60; pfam00877 314315000530 Hsp70 protein; Region: HSP70; pfam00012 314315000531 Peptidase family C69; Region: Peptidase_C69; pfam03577 314315000532 MarR family; Region: MarR_2; cl17246 314315000533 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 314315000534 propionate/acetate kinase; Provisional; Region: PRK12379 314315000535 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 314315000536 Sugar transport protein; Region: Sugar_transport; pfam06800 314315000537 D-ribose pyranase; Provisional; Region: PRK11797 314315000538 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 314315000539 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 314315000540 substrate binding site [chemical binding]; other site 314315000541 dimer interface [polypeptide binding]; other site 314315000542 ATP binding site [chemical binding]; other site 314315000543 Transcriptional regulators [Transcription]; Region: PurR; COG1609 314315000544 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 314315000545 DNA binding site [nucleotide binding] 314315000546 domain linker motif; other site 314315000547 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 314315000548 dimerization interface [polypeptide binding]; other site 314315000549 ligand binding site [chemical binding]; other site 314315000550 Predicted transcriptional regulators [Transcription]; Region: COG1695 314315000551 Transcriptional regulator PadR-like family; Region: PadR; cl17335 314315000552 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 314315000553 Major Facilitator Superfamily; Region: MFS_1; pfam07690 314315000554 putative substrate translocation pore; other site 314315000555 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 314315000556 catalytic core [active] 314315000557 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 314315000558 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 314315000559 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 314315000560 Walker A motif; other site 314315000561 ATP binding site [chemical binding]; other site 314315000562 Walker B motif; other site 314315000563 arginine finger; other site 314315000564 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 314315000565 Walker A motif; other site 314315000566 ATP binding site [chemical binding]; other site 314315000567 Walker B motif; other site 314315000568 arginine finger; other site 314315000569 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 314315000570 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 314315000571 Protein of unknown function (DUF1361); Region: DUF1361; pfam07099 314315000572 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 314315000573 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 314315000574 active site 314315000575 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 314315000576 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 314315000577 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 314315000578 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 314315000579 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 314315000580 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 314315000581 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 314315000582 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 314315000583 WxL domain surface cell wall-binding; Region: WxL; pfam13731 314315000584 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 314315000585 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 314315000586 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 314315000587 Helix-turn-helix domain; Region: HTH_38; pfam13936 314315000588 Integrase core domain; Region: rve; pfam00665 314315000589 MarR family; Region: MarR_2; cl17246 314315000590 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 314315000591 dimerization interface [polypeptide binding]; other site 314315000592 putative DNA binding site [nucleotide binding]; other site 314315000593 putative Zn2+ binding site [ion binding]; other site 314315000594 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 314315000595 active site residue [active] 314315000596 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 314315000597 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 314315000598 catalytic residues [active] 314315000599 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314315000600 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 314315000601 non-specific DNA binding site [nucleotide binding]; other site 314315000602 salt bridge; other site 314315000603 sequence-specific DNA binding site [nucleotide binding]; other site 314315000604 Cupin domain; Region: Cupin_2; cl17218 314315000605 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 314315000606 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 314315000607 Transposase; Region: HTH_Tnp_1; pfam01527 314315000608 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 314315000609 HTH-like domain; Region: HTH_21; pfam13276 314315000610 Integrase core domain; Region: rve; pfam00665 314315000611 Integrase core domain; Region: rve_2; pfam13333 314315000612 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 314315000613 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 314315000614 metal binding site [ion binding]; metal-binding site 314315000615 dimer interface [polypeptide binding]; other site 314315000616 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314315000617 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314315000618 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 314315000619 dimerization interface [polypeptide binding]; other site 314315000620 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 314315000621 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 314315000622 active site 314315000623 substrate binding site [chemical binding]; other site 314315000624 trimer interface [polypeptide binding]; other site 314315000625 CoA binding site [chemical binding]; other site 314315000626 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 314315000627 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314315000628 NAD(P) binding site [chemical binding]; other site 314315000629 active site 314315000630 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 314315000631 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 314315000632 Zn binding site [ion binding]; other site 314315000633 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 314315000634 Major Facilitator Superfamily; Region: MFS_1; pfam07690 314315000635 putative substrate translocation pore; other site 314315000636 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 314315000637 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314315000638 NADH(P)-binding; Region: NAD_binding_10; pfam13460 314315000639 NAD(P) binding site [chemical binding]; other site 314315000640 active site 314315000641 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 314315000642 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 314315000643 DNA binding residues [nucleotide binding] 314315000644 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 314315000645 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 314315000646 Transcriptional regulators [Transcription]; Region: MarR; COG1846 314315000647 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 314315000648 putative DNA binding site [nucleotide binding]; other site 314315000649 putative Zn2+ binding site [ion binding]; other site 314315000650 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 314315000651 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314315000652 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315000653 Walker A/P-loop; other site 314315000654 ATP binding site [chemical binding]; other site 314315000655 Q-loop/lid; other site 314315000656 ABC transporter signature motif; other site 314315000657 Walker B; other site 314315000658 D-loop; other site 314315000659 H-loop/switch region; other site 314315000660 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 314315000661 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 314315000662 myosin-cross-reactive antigen; Provisional; Region: PRK13977 314315000663 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314315000664 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 314315000665 non-specific DNA binding site [nucleotide binding]; other site 314315000666 salt bridge; other site 314315000667 sequence-specific DNA binding site [nucleotide binding]; other site 314315000668 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 314315000669 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 314315000670 active site 314315000671 catalytic tetrad [active] 314315000672 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 314315000673 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 314315000674 DNA binding residues [nucleotide binding] 314315000675 putative dimer interface [polypeptide binding]; other site 314315000676 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314315000677 Coenzyme A binding pocket [chemical binding]; other site 314315000678 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 314315000679 MarR family; Region: MarR; pfam01047 314315000680 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 314315000681 Surface antigen [General function prediction only]; Region: COG3942 314315000682 CHAP domain; Region: CHAP; pfam05257 314315000683 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 314315000684 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 314315000685 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 314315000686 putative active site [active] 314315000687 catalytic site [active] 314315000688 putative metal binding site [ion binding]; other site 314315000689 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 314315000690 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 314315000691 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 314315000692 manganese transport protein MntH; Reviewed; Region: PRK00701 314315000693 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 314315000694 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 314315000695 Ligand Binding Site [chemical binding]; other site 314315000696 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 314315000697 S-adenosylmethionine binding site [chemical binding]; other site 314315000698 elongation factor P; Validated; Region: PRK00529 314315000699 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 314315000700 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 314315000701 RNA binding site [nucleotide binding]; other site 314315000702 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 314315000703 RNA binding site [nucleotide binding]; other site 314315000704 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 314315000705 active site 314315000706 tetramer interface [polypeptide binding]; other site 314315000707 putative kinase; Provisional; Region: PRK09954 314315000708 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 314315000709 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 314315000710 substrate binding site [chemical binding]; other site 314315000711 ATP binding site [chemical binding]; other site 314315000712 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 314315000713 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 314315000714 substrate binding site [chemical binding]; other site 314315000715 ATP binding site [chemical binding]; other site 314315000716 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 314315000717 active site 314315000718 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 314315000719 HTH-like domain; Region: HTH_21; pfam13276 314315000720 Integrase core domain; Region: rve; pfam00665 314315000721 Integrase core domain; Region: rve_2; pfam13333 314315000722 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 314315000723 Transposase; Region: HTH_Tnp_1; pfam01527 314315000724 Predicted membrane protein [Function unknown]; Region: COG2364 314315000725 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 314315000726 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 314315000727 active site 314315000728 NAD binding site [chemical binding]; other site 314315000729 metal binding site [ion binding]; metal-binding site 314315000730 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 314315000731 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 314315000732 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 314315000733 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 314315000734 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 314315000735 active site 314315000736 catalytic tetrad [active] 314315000737 putative transposase OrfB; Reviewed; Region: PHA02517 314315000738 HTH-like domain; Region: HTH_21; pfam13276 314315000739 Integrase core domain; Region: rve; pfam00665 314315000740 Integrase core domain; Region: rve_2; pfam13333 314315000741 BCCT family transporter; Region: BCCT; pfam02028 314315000742 Predicted transcriptional regulators [Transcription]; Region: COG1695 314315000743 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 314315000744 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 314315000745 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 314315000746 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 314315000747 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 314315000748 putative substrate translocation pore; other site 314315000749 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314315000750 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 314315000751 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 314315000752 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314315000753 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315000754 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315000755 Walker A/P-loop; other site 314315000756 ATP binding site [chemical binding]; other site 314315000757 ABC transporter; Region: ABC_tran; pfam00005 314315000758 Q-loop/lid; other site 314315000759 ABC transporter signature motif; other site 314315000760 Walker B; other site 314315000761 D-loop; other site 314315000762 H-loop/switch region; other site 314315000763 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 314315000764 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314315000765 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 314315000766 Walker A/P-loop; other site 314315000767 ATP binding site [chemical binding]; other site 314315000768 Q-loop/lid; other site 314315000769 ABC transporter signature motif; other site 314315000770 Walker B; other site 314315000771 D-loop; other site 314315000772 H-loop/switch region; other site 314315000773 Family description; Region: UvrD_C_2; pfam13538 314315000774 Part of AAA domain; Region: AAA_19; pfam13245 314315000775 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 314315000776 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 314315000777 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 314315000778 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 314315000779 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 314315000780 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 314315000781 active site 314315000782 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314315000783 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 314315000784 active site 314315000785 phosphorylation site [posttranslational modification] 314315000786 intermolecular recognition site; other site 314315000787 dimerization interface [polypeptide binding]; other site 314315000788 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 314315000789 DNA binding site [nucleotide binding] 314315000790 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314315000791 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 314315000792 dimer interface [polypeptide binding]; other site 314315000793 phosphorylation site [posttranslational modification] 314315000794 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 314315000795 ATP binding site [chemical binding]; other site 314315000796 Mg2+ binding site [ion binding]; other site 314315000797 G-X-G motif; other site 314315000798 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 314315000799 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 314315000800 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 314315000801 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 314315000802 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 314315000803 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314315000804 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 314315000805 Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: TroA_b; cd01020 314315000806 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 314315000807 metal binding site [ion binding]; metal-binding site 314315000808 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 314315000809 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 314315000810 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 314315000811 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; cl00462 314315000812 ABC-ATPase subunit interface; other site 314315000813 dimer interface [polypeptide binding]; other site 314315000814 putative PBP binding regions; other site 314315000815 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 314315000816 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 314315000817 active site 314315000818 Zn binding site [ion binding]; other site 314315000819 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 314315000820 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 314315000821 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 314315000822 Nucleoside recognition; Region: Gate; pfam07670 314315000823 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 314315000824 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 314315000825 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 314315000826 DNA-binding site [nucleotide binding]; DNA binding site 314315000827 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 314315000828 putative phosphoketolase; Provisional; Region: PRK05261 314315000829 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 314315000830 TPP-binding site; other site 314315000831 XFP C-terminal domain; Region: XFP_C; pfam09363 314315000832 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 314315000833 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 314315000834 active site 314315000835 HIGH motif; other site 314315000836 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 314315000837 active site 314315000838 KMSKS motif; other site 314315000839 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 314315000840 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 314315000841 substrate binding site [chemical binding]; other site 314315000842 ATP binding site [chemical binding]; other site 314315000843 acetoin reductase; Validated; Region: PRK08643 314315000844 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 314315000845 NAD binding site [chemical binding]; other site 314315000846 homotetramer interface [polypeptide binding]; other site 314315000847 homodimer interface [polypeptide binding]; other site 314315000848 active site 314315000849 substrate binding site [chemical binding]; other site 314315000850 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314315000851 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 314315000852 non-specific DNA binding site [nucleotide binding]; other site 314315000853 salt bridge; other site 314315000854 sequence-specific DNA binding site [nucleotide binding]; other site 314315000855 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 314315000856 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 314315000857 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 314315000858 putative active site [active] 314315000859 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 314315000860 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 314315000861 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 314315000862 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 314315000863 N- and C-terminal domain interface [polypeptide binding]; other site 314315000864 active site 314315000865 catalytic site [active] 314315000866 metal binding site [ion binding]; metal-binding site 314315000867 carbohydrate binding site [chemical binding]; other site 314315000868 ATP binding site [chemical binding]; other site 314315000869 GntP family permease; Region: GntP_permease; pfam02447 314315000870 fructuronate transporter; Provisional; Region: PRK10034; cl15264 314315000871 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 314315000872 Sterol carrier protein domain; Region: SCP2_2; pfam13530 314315000873 Sterol carrier protein domain; Region: SCP2_2; pfam13530 314315000874 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 314315000875 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 314315000876 transmembrane helices; other site 314315000877 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 314315000878 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314315000879 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315000880 Walker A/P-loop; other site 314315000881 ATP binding site [chemical binding]; other site 314315000882 Q-loop/lid; other site 314315000883 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314315000884 ABC transporter signature motif; other site 314315000885 Walker B; other site 314315000886 D-loop; other site 314315000887 ABC transporter; Region: ABC_tran_2; pfam12848 314315000888 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314315000889 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 314315000890 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 314315000891 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314315000892 homodimer interface [polypeptide binding]; other site 314315000893 catalytic residue [active] 314315000894 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 314315000895 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 314315000896 catalytic residues [active] 314315000897 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 314315000898 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 314315000899 Uncharacterized conserved protein [Function unknown]; Region: COG2966 314315000900 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 314315000901 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 314315000902 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 314315000903 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 314315000904 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 314315000905 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314315000906 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314315000907 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 314315000908 NlpC/P60 family; Region: NLPC_P60; pfam00877 314315000909 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 314315000910 NADH(P)-binding; Region: NAD_binding_10; pfam13460 314315000911 NAD(P) binding site [chemical binding]; other site 314315000912 putative active site [active] 314315000913 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 314315000914 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 314315000915 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 314315000916 OPT oligopeptide transporter protein; Region: OPT; pfam03169 314315000917 putative oligopeptide transporter, OPT family; Region: TIGR00733 314315000918 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 314315000919 Peptidase family C69; Region: Peptidase_C69; pfam03577 314315000920 Uncharacterized conserved protein [Function unknown]; Region: COG1284 314315000921 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 314315000922 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 314315000923 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 314315000924 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 314315000925 active site 314315000926 motif I; other site 314315000927 motif II; other site 314315000928 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 314315000929 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 314315000930 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 314315000931 Part of AAA domain; Region: AAA_19; pfam13245 314315000932 Family description; Region: UvrD_C_2; pfam13538 314315000933 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 314315000934 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 314315000935 active site 314315000936 HIGH motif; other site 314315000937 dimer interface [polypeptide binding]; other site 314315000938 KMSKS motif; other site 314315000939 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 314315000940 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 314315000941 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 314315000942 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 314315000943 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 314315000944 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 314315000945 Predicted integral membrane protein [Function unknown]; Region: COG0392 314315000946 Uncharacterized conserved protein [Function unknown]; Region: COG2898 314315000947 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 314315000948 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 314315000949 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 314315000950 S-adenosylmethionine binding site [chemical binding]; other site 314315000951 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 314315000952 nucleoside/Zn binding site; other site 314315000953 dimer interface [polypeptide binding]; other site 314315000954 catalytic motif [active] 314315000955 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 314315000956 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 314315000957 Walker A motif; other site 314315000958 ATP binding site [chemical binding]; other site 314315000959 Walker B motif; other site 314315000960 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 314315000961 hypothetical protein; Validated; Region: PRK00153 314315000962 recombination protein RecR; Reviewed; Region: recR; PRK00076 314315000963 RecR protein; Region: RecR; pfam02132 314315000964 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 314315000965 putative active site [active] 314315000966 putative metal-binding site [ion binding]; other site 314315000967 tetramer interface [polypeptide binding]; other site 314315000968 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 314315000969 thymidylate kinase; Validated; Region: tmk; PRK00698 314315000970 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 314315000971 TMP-binding site; other site 314315000972 ATP-binding site [chemical binding]; other site 314315000973 Protein of unknown function (DUF970); Region: DUF970; pfam06153 314315000974 DNA polymerase III subunit delta'; Validated; Region: PRK08058 314315000975 DNA polymerase III subunit delta'; Validated; Region: PRK08485 314315000976 Protein of unknown function (DUF972); Region: DUF972; pfam06156 314315000977 Predicted methyltransferases [General function prediction only]; Region: COG0313 314315000978 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 314315000979 putative SAM binding site [chemical binding]; other site 314315000980 putative homodimer interface [polypeptide binding]; other site 314315000981 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 314315000982 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 314315000983 active site 314315000984 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 314315000985 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 314315000986 active site 314315000987 homotetramer interface [polypeptide binding]; other site 314315000988 homodimer interface [polypeptide binding]; other site 314315000989 hypothetical protein; Provisional; Region: PRK09609 314315000990 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 314315000991 Glycoprotease family; Region: Peptidase_M22; pfam00814 314315000992 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 314315000993 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314315000994 Coenzyme A binding pocket [chemical binding]; other site 314315000995 UGMP family protein; Validated; Region: PRK09604 314315000996 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 314315000997 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 314315000998 Cl- selectivity filter; other site 314315000999 Cl- binding residues [ion binding]; other site 314315001000 pore gating glutamate residue; other site 314315001001 dimer interface [polypeptide binding]; other site 314315001002 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 314315001003 active site 314315001004 P-loop; other site 314315001005 phosphorylation site [posttranslational modification] 314315001006 hypothetical protein; Provisional; Region: PRK11770 314315001007 Domain of unknown function (DUF307); Region: DUF307; pfam03733 314315001008 Domain of unknown function (DUF307); Region: DUF307; pfam03733 314315001009 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 314315001010 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314315001011 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315001012 Walker A/P-loop; other site 314315001013 ATP binding site [chemical binding]; other site 314315001014 Q-loop/lid; other site 314315001015 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314315001016 ABC transporter signature motif; other site 314315001017 Walker B; other site 314315001018 D-loop; other site 314315001019 ABC transporter; Region: ABC_tran_2; pfam12848 314315001020 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314315001021 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 314315001022 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 314315001023 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 314315001024 CoA binding domain; Region: CoA_binding; pfam02629 314315001025 CAAX protease self-immunity; Region: Abi; pfam02517 314315001026 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 314315001027 oligomerisation interface [polypeptide binding]; other site 314315001028 mobile loop; other site 314315001029 roof hairpin; other site 314315001030 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 314315001031 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 314315001032 ring oligomerisation interface [polypeptide binding]; other site 314315001033 ATP/Mg binding site [chemical binding]; other site 314315001034 stacking interactions; other site 314315001035 hinge regions; other site 314315001036 Amino acid permease; Region: AA_permease_2; pfam13520 314315001037 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 314315001038 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 314315001039 putative active site [active] 314315001040 metal binding site [ion binding]; metal-binding site 314315001041 homodimer binding site [polypeptide binding]; other site 314315001042 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 314315001043 MutS domain I; Region: MutS_I; pfam01624 314315001044 MutS domain II; Region: MutS_II; pfam05188 314315001045 MutS domain III; Region: MutS_III; pfam05192 314315001046 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 314315001047 Walker A/P-loop; other site 314315001048 ATP binding site [chemical binding]; other site 314315001049 Q-loop/lid; other site 314315001050 ABC transporter signature motif; other site 314315001051 Walker B; other site 314315001052 D-loop; other site 314315001053 H-loop/switch region; other site 314315001054 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 314315001055 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 314315001056 ATP binding site [chemical binding]; other site 314315001057 Mg2+ binding site [ion binding]; other site 314315001058 G-X-G motif; other site 314315001059 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 314315001060 ATP binding site [chemical binding]; other site 314315001061 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 314315001062 Maf-like protein; Region: Maf; pfam02545 314315001063 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 314315001064 active site 314315001065 dimer interface [polypeptide binding]; other site 314315001066 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 314315001067 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 314315001068 RuvA N terminal domain; Region: RuvA_N; pfam01330 314315001069 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 314315001070 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 314315001071 Walker A motif; other site 314315001072 ATP binding site [chemical binding]; other site 314315001073 Walker B motif; other site 314315001074 arginine finger; other site 314315001075 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 314315001076 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 314315001077 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 314315001078 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 314315001079 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 314315001080 arginine deiminase; Region: arcA; TIGR01078 314315001081 ornithine carbamoyltransferase; Validated; Region: PRK02102 314315001082 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 314315001083 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 314315001084 carbamate kinase; Reviewed; Region: PRK12686 314315001085 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 314315001086 putative substrate binding site [chemical binding]; other site 314315001087 nucleotide binding site [chemical binding]; other site 314315001088 nucleotide binding site [chemical binding]; other site 314315001089 homodimer interface [polypeptide binding]; other site 314315001090 transaminase; Validated; Region: PRK07324 314315001091 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 314315001092 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314315001093 homodimer interface [polypeptide binding]; other site 314315001094 catalytic residue [active] 314315001095 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 314315001096 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 314315001097 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 314315001098 ligand binding site [chemical binding]; other site 314315001099 flexible hinge region; other site 314315001100 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 314315001101 putative switch regulator; other site 314315001102 non-specific DNA interactions [nucleotide binding]; other site 314315001103 DNA binding site [nucleotide binding] 314315001104 sequence specific DNA binding site [nucleotide binding]; other site 314315001105 putative cAMP binding site [chemical binding]; other site 314315001106 Predicted membrane protein [Function unknown]; Region: COG1288 314315001107 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 314315001108 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 314315001109 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 314315001110 Preprotein translocase subunit; Region: YajC; pfam02699 314315001111 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 314315001112 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 314315001113 putative catalytic cysteine [active] 314315001114 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 314315001115 putative active site [active] 314315001116 metal binding site [ion binding]; metal-binding site 314315001117 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 314315001118 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 314315001119 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 314315001120 FeoA domain; Region: FeoA; pfam04023 314315001121 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 314315001122 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 314315001123 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 314315001124 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 314315001125 active site 314315001126 DNA polymerase IV; Validated; Region: PRK02406 314315001127 DNA binding site [nucleotide binding] 314315001128 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 314315001129 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 314315001130 DNA-binding site [nucleotide binding]; DNA binding site 314315001131 DRTGG domain; Region: DRTGG; pfam07085 314315001132 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 314315001133 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 314315001134 active site 2 [active] 314315001135 active site 1 [active] 314315001136 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 314315001137 DHH family; Region: DHH; pfam01368 314315001138 DHHA1 domain; Region: DHHA1; pfam02272 314315001139 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 314315001140 DEAD-like helicases superfamily; Region: DEXDc; smart00487 314315001141 ATP binding site [chemical binding]; other site 314315001142 Mg++ binding site [ion binding]; other site 314315001143 motif III; other site 314315001144 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 314315001145 nucleotide binding region [chemical binding]; other site 314315001146 ATP-binding site [chemical binding]; other site 314315001147 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 314315001148 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 314315001149 motif 1; other site 314315001150 active site 314315001151 motif 2; other site 314315001152 motif 3; other site 314315001153 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 314315001154 DHHA1 domain; Region: DHHA1; pfam02272 314315001155 hypothetical protein; Provisional; Region: PRK05473 314315001156 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 314315001157 hypothetical protein; Provisional; Region: PRK13678 314315001158 ribonuclease HIII; Provisional; Region: PRK00996 314315001159 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 314315001160 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 314315001161 RNA/DNA hybrid binding site [nucleotide binding]; other site 314315001162 active site 314315001163 Colicin V production protein; Region: Colicin_V; pfam02674 314315001164 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 314315001165 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 314315001166 MutS domain III; Region: MutS_III; pfam05192 314315001167 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315001168 Walker A/P-loop; other site 314315001169 ATP binding site [chemical binding]; other site 314315001170 Q-loop/lid; other site 314315001171 ABC transporter signature motif; other site 314315001172 Walker B; other site 314315001173 D-loop; other site 314315001174 H-loop/switch region; other site 314315001175 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 314315001176 Smr domain; Region: Smr; pfam01713 314315001177 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 314315001178 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 314315001179 catalytic residues [active] 314315001180 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 314315001181 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 314315001182 acyl-activating enzyme (AAE) consensus motif; other site 314315001183 AMP binding site [chemical binding]; other site 314315001184 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 314315001185 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 314315001186 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 314315001187 DltD N-terminal region; Region: DltD_N; pfam04915 314315001188 DltD central region; Region: DltD_M; pfam04918 314315001189 DltD C-terminal region; Region: DltD_C; pfam04914 314315001190 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 314315001191 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 314315001192 intersubunit interface [polypeptide binding]; other site 314315001193 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 314315001194 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 314315001195 Walker A/P-loop; other site 314315001196 ATP binding site [chemical binding]; other site 314315001197 Q-loop/lid; other site 314315001198 ABC transporter signature motif; other site 314315001199 Walker B; other site 314315001200 D-loop; other site 314315001201 H-loop/switch region; other site 314315001202 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 314315001203 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 314315001204 ABC-ATPase subunit interface; other site 314315001205 dimer interface [polypeptide binding]; other site 314315001206 putative PBP binding regions; other site 314315001207 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 314315001208 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 314315001209 ABC-ATPase subunit interface; other site 314315001210 dimer interface [polypeptide binding]; other site 314315001211 putative PBP binding regions; other site 314315001212 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 314315001213 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314315001214 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 314315001215 glutamate racemase; Provisional; Region: PRK00865 314315001216 RNase PH [Translation, ribosomal structure and biogenesis]; Region: Rph; COG0689 314315001217 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cd11358 314315001218 oligomer interface [polypeptide binding]; other site 314315001219 RNA binding site [nucleotide binding]; other site 314315001220 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 314315001221 active site 314315001222 dimerization interface [polypeptide binding]; other site 314315001223 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 314315001224 active site 314315001225 metal binding site [ion binding]; metal-binding site 314315001226 homotetramer interface [polypeptide binding]; other site 314315001227 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_30; cd04643 314315001228 FOG: CBS domain [General function prediction only]; Region: COG0517 314315001229 Domain of unknown function (DUF368); Region: DUF368; pfam04018 314315001230 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 314315001231 Mechanosensitive ion channel; Region: MS_channel; pfam00924 314315001232 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 314315001233 YtxH-like protein; Region: YtxH; cl02079 314315001234 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 314315001235 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 314315001236 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 314315001237 active site 314315001238 catabolite control protein A; Region: ccpA; TIGR01481 314315001239 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 314315001240 DNA binding site [nucleotide binding] 314315001241 domain linker motif; other site 314315001242 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 314315001243 dimerization interface [polypeptide binding]; other site 314315001244 effector binding site; other site 314315001245 Transglycosylase; Region: Transgly; pfam00912 314315001246 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 314315001247 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 314315001248 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 314315001249 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 314315001250 active site 314315001251 trimer interface [polypeptide binding]; other site 314315001252 allosteric site; other site 314315001253 active site lid [active] 314315001254 hexamer (dimer of trimers) interface [polypeptide binding]; other site 314315001255 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 314315001256 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 314315001257 putative substrate translocation pore; other site 314315001258 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 314315001259 DNA binding residues [nucleotide binding] 314315001260 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 314315001261 putative dimer interface [polypeptide binding]; other site 314315001262 dipeptidase PepV; Reviewed; Region: PRK07318 314315001263 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 314315001264 active site 314315001265 metal binding site [ion binding]; metal-binding site 314315001266 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 314315001267 metal-binding site [ion binding] 314315001268 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 314315001269 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 314315001270 Soluble P-type ATPase [General function prediction only]; Region: COG4087 314315001271 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 314315001272 dimerization interface [polypeptide binding]; other site 314315001273 putative DNA binding site [nucleotide binding]; other site 314315001274 putative Zn2+ binding site [ion binding]; other site 314315001275 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 314315001276 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 314315001277 active site 314315001278 catalytic site [active] 314315001279 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 314315001280 putative active site [active] 314315001281 putative metal binding site [ion binding]; other site 314315001282 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 314315001283 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 314315001284 active site 314315001285 metal binding site [ion binding]; metal-binding site 314315001286 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 314315001287 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 314315001288 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 314315001289 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 314315001290 active site 314315001291 motif I; other site 314315001292 motif II; other site 314315001293 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 314315001294 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 314315001295 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 314315001296 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 314315001297 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 314315001298 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314315001299 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 314315001300 active site 314315001301 general stress protein 13; Validated; Region: PRK08059 314315001302 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; cd00164 314315001303 RNA binding site [nucleotide binding]; other site 314315001304 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 314315001305 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314315001306 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314315001307 The substrate binding domain of LysR-type transcriptional regulator MleR which required for malolactic fermentation, contains type 2 periplasmic binidning fold; Region: PBP2_MleR; cd08437 314315001308 putative dimerization interface [polypeptide binding]; other site 314315001309 malate dehydrogenase; Provisional; Region: PRK13529 314315001310 Malic enzyme, N-terminal domain; Region: malic; pfam00390 314315001311 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 314315001312 NAD(P) binding site [chemical binding]; other site 314315001313 Membrane transport protein; Region: Mem_trans; cl09117 314315001314 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 314315001315 homotrimer interaction site [polypeptide binding]; other site 314315001316 putative active site [active] 314315001317 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 314315001318 tetramer (dimer of dimers) interface [polypeptide binding]; other site 314315001319 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 314315001320 NAD binding site [chemical binding]; other site 314315001321 dimer interface [polypeptide binding]; other site 314315001322 substrate binding site [chemical binding]; other site 314315001323 Membrane transport protein; Region: Mem_trans; pfam03547 314315001324 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 314315001325 Dihydroorotate dehydrogenase (DHOD) class 1A 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_1A_like; cd04741 314315001326 active site 314315001327 FMN binding site [chemical binding]; other site 314315001328 substrate binding site [chemical binding]; other site 314315001329 catalytic residues [active] 314315001330 homodimer interface [polypeptide binding]; other site 314315001331 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 314315001332 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 314315001333 motif II; other site 314315001334 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 314315001335 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 314315001336 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 314315001337 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 314315001338 active pocket/dimerization site; other site 314315001339 active site 314315001340 phosphorylation site [posttranslational modification] 314315001341 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 314315001342 active site 314315001343 phosphorylation site [posttranslational modification] 314315001344 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 314315001345 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 314315001346 Domain of unknown function (DUF956); Region: DUF956; pfam06115 314315001347 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 314315001348 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 314315001349 classical (c) SDRs; Region: SDR_c; cd05233 314315001350 NAD(P) binding site [chemical binding]; other site 314315001351 active site 314315001352 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 314315001353 Uncharacterized conserved protein [Function unknown]; Region: COG2461 314315001354 Family of unknown function (DUF438); Region: DUF438; pfam04282 314315001355 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 314315001356 PAS domain; Region: PAS_10; pfam13596 314315001357 Predicted permeases [General function prediction only]; Region: COG0730 314315001358 Protein of unknown function (DUF1634); Region: DUF1634; pfam07843 314315001359 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314315001360 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 314315001361 putative ADP-binding pocket [chemical binding]; other site 314315001362 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 314315001363 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 314315001364 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 314315001365 Protein of unknown function (DUF1797); Region: DUF1797; pfam08796 314315001366 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 314315001367 Sulfatase; Region: Sulfatase; pfam00884 314315001368 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 314315001369 metal binding site 2 [ion binding]; metal-binding site 314315001370 putative DNA binding helix; other site 314315001371 metal binding site 1 [ion binding]; metal-binding site 314315001372 dimer interface [polypeptide binding]; other site 314315001373 structural Zn2+ binding site [ion binding]; other site 314315001374 S-adenosylmethionine synthetase; Validated; Region: PRK05250 314315001375 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 314315001376 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 314315001377 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 314315001378 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 314315001379 Major Facilitator Superfamily; Region: MFS_1; pfam07690 314315001380 putative substrate translocation pore; other site 314315001381 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 314315001382 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 314315001383 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 314315001384 Domain of unknown function DUF20; Region: UPF0118; pfam01594 314315001385 Helix-turn-helix domain; Region: HTH_28; pfam13518 314315001386 putative transposase OrfB; Reviewed; Region: PHA02517 314315001387 HTH-like domain; Region: HTH_21; pfam13276 314315001388 Integrase core domain; Region: rve; pfam00665 314315001389 Integrase core domain; Region: rve_2; pfam13333 314315001390 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 314315001391 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314315001392 Coenzyme A binding pocket [chemical binding]; other site 314315001393 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 314315001394 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 314315001395 active site 314315001396 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 314315001397 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 314315001398 Cl binding site [ion binding]; other site 314315001399 oligomer interface [polypeptide binding]; other site 314315001400 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 314315001401 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 314315001402 S-adenosylmethionine binding site [chemical binding]; other site 314315001403 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 314315001404 Protein of unknown function (DUF1149); Region: DUF1149; pfam06619 314315001405 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 314315001406 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 314315001407 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 314315001408 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 314315001409 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 314315001410 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 314315001411 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 314315001412 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 314315001413 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 314315001414 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 314315001415 classical (c) SDRs; Region: SDR_c; cd05233 314315001416 NAD(P) binding site [chemical binding]; other site 314315001417 active site 314315001418 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 314315001419 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 314315001420 non-specific DNA binding site [nucleotide binding]; other site 314315001421 salt bridge; other site 314315001422 sequence-specific DNA binding site [nucleotide binding]; other site 314315001423 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 314315001424 recombinase A; Provisional; Region: recA; PRK09354 314315001425 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 314315001426 hexamer interface [polypeptide binding]; other site 314315001427 Walker A motif; other site 314315001428 ATP binding site [chemical binding]; other site 314315001429 Walker B motif; other site 314315001430 ribonuclease Y; Region: RNase_Y; TIGR03319 314315001431 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314315001432 Zn2+ binding site [ion binding]; other site 314315001433 Mg2+ binding site [ion binding]; other site 314315001434 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 314315001435 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 314315001436 Mg++ binding site [ion binding]; other site 314315001437 putative catalytic motif [active] 314315001438 substrate binding site [chemical binding]; other site 314315001439 Uncharacterized conserved protein [Function unknown]; Region: COG1739 314315001440 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 314315001441 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 314315001442 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 314315001443 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 314315001444 ATP binding site [chemical binding]; other site 314315001445 putative Mg++ binding site [ion binding]; other site 314315001446 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 314315001447 nucleotide binding region [chemical binding]; other site 314315001448 ATP-binding site [chemical binding]; other site 314315001449 comF family protein; Region: comF; TIGR00201 314315001450 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314315001451 active site 314315001452 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 314315001453 30S subunit binding site; other site 314315001454 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12906 314315001455 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 314315001456 nucleotide binding region [chemical binding]; other site 314315001457 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 314315001458 ATP-binding site [chemical binding]; other site 314315001459 peptide chain release factor 2; Provisional; Region: PRK05589 314315001460 This domain is found in peptide chain release factors; Region: PCRF; smart00937 314315001461 RF-1 domain; Region: RF-1; pfam00472 314315001462 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 314315001463 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315001464 Walker A/P-loop; other site 314315001465 ATP binding site [chemical binding]; other site 314315001466 Q-loop/lid; other site 314315001467 ABC transporter signature motif; other site 314315001468 Walker B; other site 314315001469 D-loop; other site 314315001470 H-loop/switch region; other site 314315001471 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 314315001472 FtsX-like permease family; Region: FtsX; pfam02687 314315001473 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 314315001474 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 314315001475 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314315001476 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 314315001477 active site 314315001478 phosphorylation site [posttranslational modification] 314315001479 intermolecular recognition site; other site 314315001480 dimerization interface [polypeptide binding]; other site 314315001481 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 314315001482 DNA binding site [nucleotide binding] 314315001483 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 314315001484 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 314315001485 dimer interface [polypeptide binding]; other site 314315001486 phosphorylation site [posttranslational modification] 314315001487 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 314315001488 ATP binding site [chemical binding]; other site 314315001489 Mg2+ binding site [ion binding]; other site 314315001490 G-X-G motif; other site 314315001491 phosphate binding protein; Region: ptsS_2; TIGR02136 314315001492 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 314315001493 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 314315001494 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 314315001495 dimer interface [polypeptide binding]; other site 314315001496 conserved gate region; other site 314315001497 putative PBP binding loops; other site 314315001498 ABC-ATPase subunit interface; other site 314315001499 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 314315001500 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 314315001501 dimer interface [polypeptide binding]; other site 314315001502 conserved gate region; other site 314315001503 putative PBP binding loops; other site 314315001504 ABC-ATPase subunit interface; other site 314315001505 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 314315001506 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 314315001507 Walker A/P-loop; other site 314315001508 ATP binding site [chemical binding]; other site 314315001509 Q-loop/lid; other site 314315001510 ABC transporter signature motif; other site 314315001511 Walker B; other site 314315001512 D-loop; other site 314315001513 H-loop/switch region; other site 314315001514 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14255 314315001515 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 314315001516 Walker A/P-loop; other site 314315001517 ATP binding site [chemical binding]; other site 314315001518 Q-loop/lid; other site 314315001519 ABC transporter signature motif; other site 314315001520 Walker B; other site 314315001521 D-loop; other site 314315001522 H-loop/switch region; other site 314315001523 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 314315001524 PhoU domain; Region: PhoU; pfam01895 314315001525 PhoU domain; Region: PhoU; pfam01895 314315001526 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 314315001527 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 314315001528 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 314315001529 substrate-cofactor binding pocket; other site 314315001530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314315001531 catalytic residue [active] 314315001532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314315001533 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 314315001534 NAD(P) binding site [chemical binding]; other site 314315001535 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 314315001536 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314315001537 active site 314315001538 Uncharacterized conserved protein [Function unknown]; Region: COG3595 314315001539 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 314315001540 PspC domain; Region: PspC; pfam04024 314315001541 Predicted membrane protein [Function unknown]; Region: COG1950 314315001542 HPr kinase/phosphorylase; Provisional; Region: PRK05428 314315001543 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 314315001544 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 314315001545 Hpr binding site; other site 314315001546 active site 314315001547 homohexamer subunit interaction site [polypeptide binding]; other site 314315001548 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 314315001549 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 314315001550 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 314315001551 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 314315001552 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 314315001553 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314315001554 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314315001555 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 314315001556 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 314315001557 active site 314315001558 substrate binding site [chemical binding]; other site 314315001559 metal binding site [ion binding]; metal-binding site 314315001560 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314315001561 Zn2+ binding site [ion binding]; other site 314315001562 Mg2+ binding site [ion binding]; other site 314315001563 excinuclease ABC subunit B; Provisional; Region: PRK05298 314315001564 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 314315001565 ATP binding site [chemical binding]; other site 314315001566 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 314315001567 nucleotide binding region [chemical binding]; other site 314315001568 ATP-binding site [chemical binding]; other site 314315001569 Ultra-violet resistance protein B; Region: UvrB; pfam12344 314315001570 UvrB/uvrC motif; Region: UVR; pfam02151 314315001571 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 314315001572 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 314315001573 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 314315001574 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 314315001575 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 314315001576 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 314315001577 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 314315001578 phosphate binding site [ion binding]; other site 314315001579 putative substrate binding pocket [chemical binding]; other site 314315001580 dimer interface [polypeptide binding]; other site 314315001581 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 314315001582 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 314315001583 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 314315001584 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 314315001585 dimerization interface [polypeptide binding]; other site 314315001586 putative DNA binding site [nucleotide binding]; other site 314315001587 putative Zn2+ binding site [ion binding]; other site 314315001588 Thioredoxin; Region: Thioredoxin_4; pfam13462 314315001589 Clp protease; Region: CLP_protease; pfam00574 314315001590 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 314315001591 oligomer interface [polypeptide binding]; other site 314315001592 active site residues [active] 314315001593 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 314315001594 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 314315001595 active site 314315001596 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314315001597 NADH(P)-binding; Region: NAD_binding_10; pfam13460 314315001598 NAD(P) binding site [chemical binding]; other site 314315001599 active site 314315001600 Predicted transcriptional regulators [Transcription]; Region: COG1733 314315001601 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 314315001602 putative Zn2+ binding site [ion binding]; other site 314315001603 putative DNA binding site [nucleotide binding]; other site 314315001604 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 314315001605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314315001606 NAD(P) binding site [chemical binding]; other site 314315001607 active site 314315001608 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 314315001609 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 314315001610 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 314315001611 NAD(P) binding site [chemical binding]; other site 314315001612 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314315001613 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 314315001614 non-specific DNA binding site [nucleotide binding]; other site 314315001615 salt bridge; other site 314315001616 sequence-specific DNA binding site [nucleotide binding]; other site 314315001617 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 314315001618 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 314315001619 catalytic Zn binding site [ion binding]; other site 314315001620 NAD binding site [chemical binding]; other site 314315001621 structural Zn binding site [ion binding]; other site 314315001622 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 314315001623 active site 314315001624 DNA binding site [nucleotide binding] 314315001625 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 314315001626 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 314315001627 Walker A/P-loop; other site 314315001628 ATP binding site [chemical binding]; other site 314315001629 Q-loop/lid; other site 314315001630 ABC transporter signature motif; other site 314315001631 Walker B; other site 314315001632 D-loop; other site 314315001633 H-loop/switch region; other site 314315001634 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 314315001635 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 314315001636 Histidine kinase; Region: HisKA_3; pfam07730 314315001637 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 314315001638 ATP binding site [chemical binding]; other site 314315001639 Mg2+ binding site [ion binding]; other site 314315001640 G-X-G motif; other site 314315001641 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 314315001642 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 314315001643 active site 314315001644 phosphorylation site [posttranslational modification] 314315001645 intermolecular recognition site; other site 314315001646 dimerization interface [polypeptide binding]; other site 314315001647 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 314315001648 DNA binding residues [nucleotide binding] 314315001649 dimerization interface [polypeptide binding]; other site 314315001650 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 314315001651 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 314315001652 peptide binding site [polypeptide binding]; other site 314315001653 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 314315001654 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 314315001655 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315001656 Walker A/P-loop; other site 314315001657 ATP binding site [chemical binding]; other site 314315001658 Q-loop/lid; other site 314315001659 ABC transporter signature motif; other site 314315001660 Walker B; other site 314315001661 D-loop; other site 314315001662 H-loop/switch region; other site 314315001663 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 314315001664 Predicted membrane protein [Function unknown]; Region: COG1511 314315001665 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 314315001666 LytTr DNA-binding domain; Region: LytTR; smart00850 314315001667 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 314315001668 Enterocin A Immunity; Region: EntA_Immun; pfam08951 314315001669 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 314315001670 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 314315001671 ATP binding site [chemical binding]; other site 314315001672 Mg2+ binding site [ion binding]; other site 314315001673 G-X-G motif; other site 314315001674 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 314315001675 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 314315001676 active site 314315001677 phosphorylation site [posttranslational modification] 314315001678 intermolecular recognition site; other site 314315001679 dimerization interface [polypeptide binding]; other site 314315001680 LytTr DNA-binding domain; Region: LytTR; pfam04397 314315001681 Enterocin A Immunity; Region: EntA_Immun; pfam08951 314315001682 Enterocin A Immunity; Region: EntA_Immun; pfam08951 314315001683 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 314315001684 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 314315001685 tetramer interface [polypeptide binding]; other site 314315001686 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314315001687 catalytic residue [active] 314315001688 CAAX protease self-immunity; Region: Abi; pfam02517 314315001689 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 314315001690 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314315001691 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314315001692 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314315001693 Protein of unknown function (DUF554); Region: DUF554; pfam04474 314315001694 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314315001695 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314315001696 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 314315001697 dimerization interface [polypeptide binding]; other site 314315001698 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 314315001699 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 314315001700 Flavoprotein; Region: Flavoprotein; pfam02441 314315001701 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 314315001702 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 314315001703 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 314315001704 putative active site [active] 314315001705 catalytic site [active] 314315001706 putative metal binding site [ion binding]; other site 314315001707 Peptidase family C69; Region: Peptidase_C69; pfam03577 314315001708 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 314315001709 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 314315001710 Int/Topo IB signature motif; other site 314315001711 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 314315001712 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 314315001713 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314315001714 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 314315001715 non-specific DNA binding site [nucleotide binding]; other site 314315001716 salt bridge; other site 314315001717 sequence-specific DNA binding site [nucleotide binding]; other site 314315001718 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 314315001719 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 314315001720 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 314315001721 polymerase nucleotide-binding site; other site 314315001722 DNA-binding residues [nucleotide binding]; DNA binding site 314315001723 nucleotide binding site [chemical binding]; other site 314315001724 primase nucleotide-binding site [nucleotide binding]; other site 314315001725 Primase C terminal 1 (PriCT-1); Region: PriCT_1; pfam08708 314315001726 D5 N terminal like; Region: D5_N; smart00885 314315001727 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 314315001728 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 314315001729 Uncharacterized small protein (DUF2292); Region: DUF2292; cl02371 314315001730 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 314315001731 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 314315001732 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 314315001733 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 314315001734 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 314315001735 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 314315001736 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 314315001737 Phosphoglycerate kinase; Region: PGK; pfam00162 314315001738 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 314315001739 substrate binding site [chemical binding]; other site 314315001740 hinge regions; other site 314315001741 ADP binding site [chemical binding]; other site 314315001742 catalytic site [active] 314315001743 triosephosphate isomerase; Provisional; Region: PRK14567 314315001744 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 314315001745 substrate binding site [chemical binding]; other site 314315001746 dimer interface [polypeptide binding]; other site 314315001747 catalytic triad [active] 314315001748 enolase; Provisional; Region: eno; PRK00077 314315001749 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 314315001750 dimer interface [polypeptide binding]; other site 314315001751 metal binding site [ion binding]; metal-binding site 314315001752 substrate binding pocket [chemical binding]; other site 314315001753 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 314315001754 active site 314315001755 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 314315001756 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 314315001757 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 314315001758 WxL domain surface cell wall-binding; Region: WxL; pfam13731 314315001759 Arginine repressor [Transcription]; Region: ArgR; COG1438 314315001760 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 314315001761 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 314315001762 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 314315001763 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 314315001764 Walker A/P-loop; other site 314315001765 ATP binding site [chemical binding]; other site 314315001766 Q-loop/lid; other site 314315001767 ABC transporter signature motif; other site 314315001768 Walker B; other site 314315001769 D-loop; other site 314315001770 H-loop/switch region; other site 314315001771 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 314315001772 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 314315001773 putative PBP binding loops; other site 314315001774 dimer interface [polypeptide binding]; other site 314315001775 ABC-ATPase subunit interface; other site 314315001776 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 314315001777 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 314315001778 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 314315001779 putative PBP binding loops; other site 314315001780 dimer interface [polypeptide binding]; other site 314315001781 ABC-ATPase subunit interface; other site 314315001782 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 314315001783 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 314315001784 active site 314315001785 Transglycosylase; Region: Transgly; pfam00912 314315001786 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 314315001787 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 314315001788 Protein of unknown function (DUF964); Region: DUF964; cl01483 314315001789 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 314315001790 active site 314315001791 metal binding site [ion binding]; metal-binding site 314315001792 DNA binding site [nucleotide binding] 314315001793 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 314315001794 AAA domain; Region: AAA_23; pfam13476 314315001795 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 314315001796 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 314315001797 generic binding surface I; other site 314315001798 generic binding surface II; other site 314315001799 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314315001800 Zn2+ binding site [ion binding]; other site 314315001801 Mg2+ binding site [ion binding]; other site 314315001802 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 314315001803 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 314315001804 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 314315001805 HIT family signature motif; other site 314315001806 catalytic residue [active] 314315001807 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 314315001808 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 314315001809 Walker A/P-loop; other site 314315001810 ATP binding site [chemical binding]; other site 314315001811 Q-loop/lid; other site 314315001812 ABC transporter signature motif; other site 314315001813 Walker B; other site 314315001814 D-loop; other site 314315001815 H-loop/switch region; other site 314315001816 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 314315001817 Phosphotransferase enzyme family; Region: APH; pfam01636 314315001818 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 314315001819 active site 314315001820 substrate binding site [chemical binding]; other site 314315001821 ATP binding site [chemical binding]; other site 314315001822 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 314315001823 Predicted small secreted protein [Function unknown]; Region: COG5584 314315001824 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 314315001825 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 314315001826 catalytic residues [active] 314315001827 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 314315001828 putative tRNA-binding site [nucleotide binding]; other site 314315001829 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 314315001830 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 314315001831 active site 314315001832 dimer interface [polypeptide binding]; other site 314315001833 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 314315001834 Ligand Binding Site [chemical binding]; other site 314315001835 Molecular Tunnel; other site 314315001836 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 314315001837 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 314315001838 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314315001839 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 314315001840 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 314315001841 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 314315001842 Predicted transcriptional regulators [Transcription]; Region: COG1695 314315001843 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 314315001844 Predicted membrane protein [Function unknown]; Region: COG4709 314315001845 Peptidase family M48; Region: Peptidase_M48; cl12018 314315001846 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 314315001847 Ligand Binding Site [chemical binding]; other site 314315001848 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 314315001849 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; smart00940 314315001850 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 314315001851 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 314315001852 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 314315001853 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 314315001854 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 314315001855 active site 314315001856 catalytic triad [active] 314315001857 oxyanion hole [active] 314315001858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 314315001859 Surface antigen [General function prediction only]; Region: COG3942 314315001860 CHAP domain; Region: CHAP; cl17642 314315001861 Beta-lactamase; Region: Beta-lactamase; pfam00144 314315001862 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 314315001863 glycerol kinase; Provisional; Region: glpK; PRK00047 314315001864 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 314315001865 N- and C-terminal domain interface [polypeptide binding]; other site 314315001866 active site 314315001867 MgATP binding site [chemical binding]; other site 314315001868 catalytic site [active] 314315001869 metal binding site [ion binding]; metal-binding site 314315001870 glycerol binding site [chemical binding]; other site 314315001871 homotetramer interface [polypeptide binding]; other site 314315001872 homodimer interface [polypeptide binding]; other site 314315001873 FBP binding site [chemical binding]; other site 314315001874 protein IIAGlc interface [polypeptide binding]; other site 314315001875 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 314315001876 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 314315001877 amphipathic channel; other site 314315001878 Asn-Pro-Ala signature motifs; other site 314315001879 AIR carboxylase; Region: AIRC; pfam00731 314315001880 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 314315001881 ATP-grasp domain; Region: ATP-grasp; pfam02222 314315001882 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 314315001883 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 314315001884 tetramer interface [polypeptide binding]; other site 314315001885 active site 314315001886 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 314315001887 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 314315001888 ATP binding site [chemical binding]; other site 314315001889 active site 314315001890 substrate binding site [chemical binding]; other site 314315001891 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 314315001892 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 314315001893 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 314315001894 putative active site [active] 314315001895 catalytic triad [active] 314315001896 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 314315001897 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 314315001898 dimerization interface [polypeptide binding]; other site 314315001899 ATP binding site [chemical binding]; other site 314315001900 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 314315001901 dimerization interface [polypeptide binding]; other site 314315001902 ATP binding site [chemical binding]; other site 314315001903 amidophosphoribosyltransferase; Provisional; Region: PRK07272 314315001904 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 314315001905 active site 314315001906 tetramer interface [polypeptide binding]; other site 314315001907 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314315001908 active site 314315001909 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 314315001910 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 314315001911 dimerization interface [polypeptide binding]; other site 314315001912 putative ATP binding site [chemical binding]; other site 314315001913 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 314315001914 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 314315001915 active site 314315001916 substrate binding site [chemical binding]; other site 314315001917 cosubstrate binding site; other site 314315001918 catalytic site [active] 314315001919 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 314315001920 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 314315001921 purine monophosphate binding site [chemical binding]; other site 314315001922 dimer interface [polypeptide binding]; other site 314315001923 putative catalytic residues [active] 314315001924 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 314315001925 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 314315001926 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 314315001927 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 314315001928 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 314315001929 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 314315001930 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 314315001931 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 314315001932 phosphate binding site [ion binding]; other site 314315001933 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 314315001934 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 314315001935 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 314315001936 Protein of unknown function (DUF464); Region: DUF464; pfam04327 314315001937 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 314315001938 elongation factor P; Validated; Region: PRK00529 314315001939 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 314315001940 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 314315001941 RNA binding site [nucleotide binding]; other site 314315001942 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 314315001943 RNA binding site [nucleotide binding]; other site 314315001944 Asp23 family; Region: Asp23; pfam03780 314315001945 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 314315001946 putative RNA binding site [nucleotide binding]; other site 314315001947 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14169 314315001948 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 314315001949 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 314315001950 homodimer interface [polypeptide binding]; other site 314315001951 NADP binding site [chemical binding]; other site 314315001952 substrate binding site [chemical binding]; other site 314315001953 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 314315001954 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 314315001955 generic binding surface II; other site 314315001956 generic binding surface I; other site 314315001957 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 314315001958 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 314315001959 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 314315001960 substrate binding pocket [chemical binding]; other site 314315001961 chain length determination region; other site 314315001962 substrate-Mg2+ binding site; other site 314315001963 catalytic residues [active] 314315001964 aspartate-rich region 1; other site 314315001965 active site lid residues [active] 314315001966 aspartate-rich region 2; other site 314315001967 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 314315001968 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 314315001969 RNA binding surface [nucleotide binding]; other site 314315001970 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 314315001971 Arginine repressor [Transcription]; Region: ArgR; COG1438 314315001972 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 314315001973 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 314315001974 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 314315001975 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 314315001976 Walker A/P-loop; other site 314315001977 ATP binding site [chemical binding]; other site 314315001978 Q-loop/lid; other site 314315001979 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 314315001980 ABC transporter signature motif; other site 314315001981 Walker B; other site 314315001982 D-loop; other site 314315001983 H-loop/switch region; other site 314315001984 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 314315001985 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 314315001986 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 314315001987 catalytic site [active] 314315001988 G-X2-G-X-G-K; other site 314315001989 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 314315001990 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 314315001991 Flavoprotein; Region: Flavoprotein; pfam02441 314315001992 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 314315001993 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 314315001994 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 314315001995 ATP binding site [chemical binding]; other site 314315001996 putative Mg++ binding site [ion binding]; other site 314315001997 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 314315001998 ATP-binding site [chemical binding]; other site 314315001999 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 314315002000 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 314315002001 putative active site [active] 314315002002 substrate binding site [chemical binding]; other site 314315002003 putative cosubstrate binding site; other site 314315002004 catalytic site [active] 314315002005 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 314315002006 substrate binding site [chemical binding]; other site 314315002007 16S rRNA methyltransferase B; Provisional; Region: PRK14902 314315002008 NusB family; Region: NusB; pfam01029 314315002009 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 314315002010 S-adenosylmethionine binding site [chemical binding]; other site 314315002011 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 314315002012 active site 314315002013 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 314315002014 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 314315002015 active site 314315002016 ATP binding site [chemical binding]; other site 314315002017 substrate binding site [chemical binding]; other site 314315002018 activation loop (A-loop); other site 314315002019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 314315002020 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 314315002021 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 314315002022 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 314315002023 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 314315002024 GTPase RsgA; Reviewed; Region: PRK00098 314315002025 RNA binding site [nucleotide binding]; other site 314315002026 homodimer interface [polypeptide binding]; other site 314315002027 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 314315002028 GTPase/Zn-binding domain interface [polypeptide binding]; other site 314315002029 GTP/Mg2+ binding site [chemical binding]; other site 314315002030 G4 box; other site 314315002031 G5 box; other site 314315002032 G1 box; other site 314315002033 Switch I region; other site 314315002034 G2 box; other site 314315002035 G3 box; other site 314315002036 Switch II region; other site 314315002037 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 314315002038 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 314315002039 substrate binding site [chemical binding]; other site 314315002040 hexamer interface [polypeptide binding]; other site 314315002041 metal binding site [ion binding]; metal-binding site 314315002042 Thiamine pyrophosphokinase; Region: TPK; cd07995 314315002043 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 314315002044 active site 314315002045 dimerization interface [polypeptide binding]; other site 314315002046 thiamine binding site [chemical binding]; other site 314315002047 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 314315002048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 314315002049 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 314315002050 DAK2 domain; Region: Dak2; pfam02734 314315002051 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 314315002052 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 314315002053 generic binding surface II; other site 314315002054 ssDNA binding site; other site 314315002055 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 314315002056 ATP binding site [chemical binding]; other site 314315002057 putative Mg++ binding site [ion binding]; other site 314315002058 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 314315002059 nucleotide binding region [chemical binding]; other site 314315002060 ATP-binding site [chemical binding]; other site 314315002061 putative phosphate acyltransferase; Provisional; Region: PRK05331 314315002062 acyl carrier protein; Provisional; Region: acpP; PRK00982 314315002063 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 314315002064 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 314315002065 peptide binding site [polypeptide binding]; other site 314315002066 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 314315002067 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; cl00427 314315002068 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 314315002069 ABC-ATPase subunit interface; other site 314315002070 putative PBP binding loops; other site 314315002071 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 314315002072 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 314315002073 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 314315002074 dimer interface [polypeptide binding]; other site 314315002075 conserved gate region; other site 314315002076 putative PBP binding loops; other site 314315002077 ABC-ATPase subunit interface; other site 314315002078 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 314315002079 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 314315002080 Walker A/P-loop; other site 314315002081 ATP binding site [chemical binding]; other site 314315002082 Q-loop/lid; other site 314315002083 ABC transporter signature motif; other site 314315002084 Walker B; other site 314315002085 D-loop; other site 314315002086 H-loop/switch region; other site 314315002087 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 314315002088 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 314315002089 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 314315002090 Walker A/P-loop; other site 314315002091 ATP binding site [chemical binding]; other site 314315002092 Q-loop/lid; other site 314315002093 ABC transporter signature motif; other site 314315002094 Walker B; other site 314315002095 D-loop; other site 314315002096 H-loop/switch region; other site 314315002097 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 314315002098 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 314315002099 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 314315002100 dimerization interface [polypeptide binding]; other site 314315002101 active site 314315002102 metal binding site [ion binding]; metal-binding site 314315002103 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 314315002104 dsRNA binding site [nucleotide binding]; other site 314315002105 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 314315002106 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 314315002107 Walker A/P-loop; other site 314315002108 ATP binding site [chemical binding]; other site 314315002109 Q-loop/lid; other site 314315002110 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 314315002111 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 314315002112 ABC transporter signature motif; other site 314315002113 Walker B; other site 314315002114 D-loop; other site 314315002115 H-loop/switch region; other site 314315002116 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 314315002117 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 314315002118 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 314315002119 P loop; other site 314315002120 GTP binding site [chemical binding]; other site 314315002121 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 314315002122 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 314315002123 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 314315002124 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 314315002125 fructuronate transporter; Provisional; Region: PRK10034; cl15264 314315002126 glycerate kinase; Region: TIGR00045 314315002127 putative DNA-binding protein; Validated; Region: PRK00118 314315002128 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 314315002129 signal recognition particle protein; Provisional; Region: PRK10867 314315002130 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 314315002131 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 314315002132 P loop; other site 314315002133 GTP binding site [chemical binding]; other site 314315002134 Signal peptide binding domain; Region: SRP_SPB; pfam02978 314315002135 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 314315002136 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 314315002137 KH domain; Region: KH_4; pfam13083 314315002138 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 314315002139 RimM N-terminal domain; Region: RimM; pfam01782 314315002140 PRC-barrel domain; Region: PRC; pfam05239 314315002141 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 314315002142 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 314315002143 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 314315002144 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 314315002145 putative deacylase active site [active] 314315002146 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 314315002147 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 314315002148 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 314315002149 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 314315002150 RNA methyltransferase, RsmE family; Region: TIGR00046 314315002151 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 314315002152 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314315002153 Zn2+ binding site [ion binding]; other site 314315002154 Mg2+ binding site [ion binding]; other site 314315002155 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 314315002156 synthetase active site [active] 314315002157 NTP binding site [chemical binding]; other site 314315002158 metal binding site [ion binding]; metal-binding site 314315002159 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 314315002160 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 314315002161 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 314315002162 putative active site [active] 314315002163 dimerization interface [polypeptide binding]; other site 314315002164 putative tRNAtyr binding site [nucleotide binding]; other site 314315002165 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 314315002166 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 314315002167 motif II; other site 314315002168 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 314315002169 Protein of unknown function (DUF4044); Region: DUF4044; pfam13253 314315002170 cell division protein MraZ; Reviewed; Region: PRK00326 314315002171 MraZ protein; Region: MraZ; pfam02381 314315002172 MraZ protein; Region: MraZ; pfam02381 314315002173 MraW methylase family; Region: Methyltransf_5; pfam01795 314315002174 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 314315002175 Cell division protein FtsL; Region: FtsL; cl11433 314315002176 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 314315002177 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 314315002178 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 314315002179 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 314315002180 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 314315002181 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 314315002182 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 314315002183 Mg++ binding site [ion binding]; other site 314315002184 putative catalytic motif [active] 314315002185 putative substrate binding site [chemical binding]; other site 314315002186 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 314315002187 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 314315002188 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314315002189 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 314315002190 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 314315002191 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 314315002192 active site 314315002193 homodimer interface [polypeptide binding]; other site 314315002194 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 314315002195 Cell division protein FtsQ; Region: FtsQ; pfam03799 314315002196 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 314315002197 Cell division protein FtsA; Region: FtsA; smart00842 314315002198 Cell division protein FtsA; Region: FtsA; pfam14450 314315002199 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 314315002200 cell division protein FtsZ; Validated; Region: PRK09330 314315002201 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 314315002202 nucleotide binding site [chemical binding]; other site 314315002203 SulA interaction site; other site 314315002204 Protein of unknown function (DUF552); Region: DUF552; pfam04472 314315002205 YGGT family; Region: YGGT; cl00508 314315002206 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 314315002207 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 314315002208 RNA binding surface [nucleotide binding]; other site 314315002209 DivIVA protein; Region: DivIVA; pfam05103 314315002210 DivIVA domain; Region: DivI1A_domain; TIGR03544 314315002211 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 314315002212 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 314315002213 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 314315002214 active site 314315002215 HIGH motif; other site 314315002216 nucleotide binding site [chemical binding]; other site 314315002217 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 314315002218 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 314315002219 active site 314315002220 KMSKS motif; other site 314315002221 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 314315002222 tRNA binding surface [nucleotide binding]; other site 314315002223 anticodon binding site; other site 314315002224 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 314315002225 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 314315002226 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314315002227 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 314315002228 active pocket/dimerization site; other site 314315002229 phosphorylation site [posttranslational modification] 314315002230 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 314315002231 active site 314315002232 DNA topoisomerase III; Provisional; Region: PRK07726 314315002233 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 314315002234 active site 314315002235 putative interdomain interaction site [polypeptide binding]; other site 314315002236 putative metal-binding site [ion binding]; other site 314315002237 putative nucleotide binding site [chemical binding]; other site 314315002238 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 314315002239 domain I; other site 314315002240 DNA binding groove [nucleotide binding] 314315002241 phosphate binding site [ion binding]; other site 314315002242 domain II; other site 314315002243 domain III; other site 314315002244 nucleotide binding site [chemical binding]; other site 314315002245 catalytic site [active] 314315002246 domain IV; other site 314315002247 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 314315002248 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 314315002249 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 314315002250 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 314315002251 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 314315002252 DNA binding site [nucleotide binding] 314315002253 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 314315002254 putative dimerization interface [polypeptide binding]; other site 314315002255 putative ligand binding site [chemical binding]; other site 314315002256 galactokinase; Provisional; Region: PRK05322 314315002257 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 314315002258 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 314315002259 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 314315002260 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 314315002261 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 314315002262 NAD binding site [chemical binding]; other site 314315002263 homodimer interface [polypeptide binding]; other site 314315002264 active site 314315002265 substrate binding site [chemical binding]; other site 314315002266 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 314315002267 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 314315002268 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 314315002269 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 314315002270 active site 314315002271 catalytic residues [active] 314315002272 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 314315002273 DNA-binding site [nucleotide binding]; DNA binding site 314315002274 RNA-binding motif; other site 314315002275 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 314315002276 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 314315002277 active site 314315002278 HIGH motif; other site 314315002279 dimer interface [polypeptide binding]; other site 314315002280 KMSKS motif; other site 314315002281 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 314315002282 RNA binding surface [nucleotide binding]; other site 314315002283 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 314315002284 Major Facilitator Superfamily; Region: MFS_1; pfam07690 314315002285 putative substrate translocation pore; other site 314315002286 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 314315002287 putative substrate translocation pore; other site 314315002288 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 314315002289 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; pfam10112 314315002290 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 314315002291 dimer interface [polypeptide binding]; other site 314315002292 ADP-ribose binding site [chemical binding]; other site 314315002293 active site 314315002294 nudix motif; other site 314315002295 metal binding site [ion binding]; metal-binding site 314315002296 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 314315002297 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 314315002298 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 314315002299 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 314315002300 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 314315002301 putative dimer interface [polypeptide binding]; other site 314315002302 catalytic triad [active] 314315002303 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 314315002304 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 314315002305 Walker A/P-loop; other site 314315002306 ATP binding site [chemical binding]; other site 314315002307 Q-loop/lid; other site 314315002308 ABC transporter signature motif; other site 314315002309 Walker B; other site 314315002310 D-loop; other site 314315002311 H-loop/switch region; other site 314315002312 Cobalt transport protein; Region: CbiQ; cl00463 314315002313 cobalt transport protein CbiM; Provisional; Region: PRK07331 314315002314 cobalt transport protein CbiM; Provisional; Region: PRK11909 314315002315 PDGLE domain; Region: PDGLE; pfam13190 314315002316 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 314315002317 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 314315002318 ligand binding site [chemical binding]; other site 314315002319 flexible hinge region; other site 314315002320 putative switch regulator; other site 314315002321 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 314315002322 non-specific DNA interactions [nucleotide binding]; other site 314315002323 DNA binding site [nucleotide binding] 314315002324 sequence specific DNA binding site [nucleotide binding]; other site 314315002325 putative cAMP binding site [chemical binding]; other site 314315002326 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 314315002327 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 314315002328 AIR carboxylase; Region: AIRC; smart01001 314315002329 Protein of unknown function DUF111; Region: DUF111; cl03398 314315002330 Protein of unknown function DUF111; Region: DUF111; cl03398 314315002331 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 314315002332 amphipathic channel; other site 314315002333 Asn-Pro-Ala signature motifs; other site 314315002334 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 314315002335 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine 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_I; cd01990 314315002336 Ligand Binding Site [chemical binding]; other site 314315002337 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 314315002338 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 314315002339 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314315002340 catalytic residue [active] 314315002341 Putative amino acid metabolism; Region: DUF1831; pfam08866 314315002342 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 314315002343 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 314315002344 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 314315002345 intersubunit interface [polypeptide binding]; other site 314315002346 active site 314315002347 catalytic residue [active] 314315002348 phosphopentomutase; Provisional; Region: PRK05362 314315002349 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 314315002350 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 314315002351 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 314315002352 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 314315002353 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 314315002354 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 314315002355 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 314315002356 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 314315002357 non-specific DNA interactions [nucleotide binding]; other site 314315002358 DNA binding site [nucleotide binding] 314315002359 sequence specific DNA binding site [nucleotide binding]; other site 314315002360 putative cAMP binding site [chemical binding]; other site 314315002361 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 314315002362 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 314315002363 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 314315002364 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 314315002365 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 314315002366 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 314315002367 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314315002368 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314315002369 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 314315002370 catalytic core [active] 314315002371 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 314315002372 TPR motif; other site 314315002373 TPR repeat; Region: TPR_11; pfam13414 314315002374 binding surface 314315002375 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 314315002376 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 314315002377 binding surface 314315002378 TPR motif; other site 314315002379 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 314315002380 AAA domain; Region: AAA_30; pfam13604 314315002381 Family description; Region: UvrD_C_2; pfam13538 314315002382 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 314315002383 Sterol carrier protein domain; Region: SCP2_2; pfam13530 314315002384 LysE type translocator; Region: LysE; cl00565 314315002385 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 314315002386 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 314315002387 Helix-Turn-Helix DNA binding domain of BmrR-like transcription regulators; Region: HTH_BmrR-like; cd04768 314315002388 DNA binding residues [nucleotide binding] 314315002389 drug binding residues [chemical binding]; other site 314315002390 dimer interface [polypeptide binding]; other site 314315002391 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 314315002392 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 314315002393 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 314315002394 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 314315002395 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 314315002396 dimer interface [polypeptide binding]; other site 314315002397 active site 314315002398 CoA binding pocket [chemical binding]; other site 314315002399 acyl carrier protein; Provisional; Region: acpP; PRK00982 314315002400 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 314315002401 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 314315002402 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 314315002403 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 314315002404 NAD(P) binding site [chemical binding]; other site 314315002405 homotetramer interface [polypeptide binding]; other site 314315002406 homodimer interface [polypeptide binding]; other site 314315002407 active site 314315002408 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 314315002409 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 314315002410 dimer interface [polypeptide binding]; other site 314315002411 active site 314315002412 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 314315002413 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 314315002414 carboxyltransferase (CT) interaction site; other site 314315002415 biotinylation site [posttranslational modification]; other site 314315002416 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 314315002417 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 314315002418 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 314315002419 ATP-grasp domain; Region: ATP-grasp_4; cl17255 314315002420 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 314315002421 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 314315002422 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 314315002423 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 314315002424 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06079 314315002425 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 314315002426 NAD binding site [chemical binding]; other site 314315002427 homotetramer interface [polypeptide binding]; other site 314315002428 homodimer interface [polypeptide binding]; other site 314315002429 substrate binding site [chemical binding]; other site 314315002430 active site 314315002431 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 314315002432 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 314315002433 BioY family; Region: BioY; pfam02632 314315002434 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 314315002435 GAF domain; Region: GAF_2; pfam13185 314315002436 NH_3: A subgroup of nucleoside hydrolases. This group contains eukaryotic and bacterial proteins similar to nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes...; Region: nuc_hydro_3; cd02653 314315002437 active site 314315002438 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 314315002439 dimer interface [polypeptide binding]; other site 314315002440 FMN binding site [chemical binding]; other site 314315002441 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 314315002442 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 314315002443 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 314315002444 active site 314315002445 motif I; other site 314315002446 motif II; other site 314315002447 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314315002448 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 314315002449 non-specific DNA binding site [nucleotide binding]; other site 314315002450 salt bridge; other site 314315002451 sequence-specific DNA binding site [nucleotide binding]; other site 314315002452 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 314315002453 TPR motif; other site 314315002454 binding surface 314315002455 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 314315002456 Ligand Binding Site [chemical binding]; other site 314315002457 recombination factor protein RarA; Reviewed; Region: PRK13342 314315002458 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 314315002459 Walker A motif; other site 314315002460 ATP binding site [chemical binding]; other site 314315002461 Walker B motif; other site 314315002462 arginine finger; other site 314315002463 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 314315002464 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 314315002465 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 314315002466 ATP-grasp domain; Region: ATP-grasp_4; cl17255 314315002467 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 314315002468 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4493 314315002469 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 314315002470 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 314315002471 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 314315002472 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 314315002473 RNA binding surface [nucleotide binding]; other site 314315002474 Septation ring formation regulator, EzrA; Region: EzrA; pfam06160 314315002475 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 314315002476 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 314315002477 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314315002478 catalytic residue [active] 314315002479 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 314315002480 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 314315002481 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 314315002482 Ligand Binding Site [chemical binding]; other site 314315002483 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 314315002484 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 314315002485 CoA binding domain; Region: CoA_binding; pfam02629 314315002486 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 314315002487 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 314315002488 active site 314315002489 HIGH motif; other site 314315002490 nucleotide binding site [chemical binding]; other site 314315002491 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 314315002492 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 314315002493 active site 314315002494 KMSKS motif; other site 314315002495 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 314315002496 tRNA binding surface [nucleotide binding]; other site 314315002497 anticodon binding site; other site 314315002498 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 314315002499 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 314315002500 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 314315002501 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 314315002502 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 314315002503 active site 314315002504 motif I; other site 314315002505 motif II; other site 314315002506 hypothetical protein; Reviewed; Region: PRK00024 314315002507 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 314315002508 MPN+ (JAMM) motif; other site 314315002509 Zinc-binding site [ion binding]; other site 314315002510 rod shape-determining protein MreB; Provisional; Region: PRK13927 314315002511 MreB and similar proteins; Region: MreB_like; cd10225 314315002512 nucleotide binding site [chemical binding]; other site 314315002513 Mg binding site [ion binding]; other site 314315002514 putative protofilament interaction site [polypeptide binding]; other site 314315002515 RodZ interaction site [polypeptide binding]; other site 314315002516 rod shape-determining protein MreC; Provisional; Region: PRK13922 314315002517 rod shape-determining protein MreC; Region: MreC; pfam04085 314315002518 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 314315002519 septum formation inhibitor; Reviewed; Region: minC; PRK00513 314315002520 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 314315002521 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 314315002522 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 314315002523 Switch I; other site 314315002524 Switch II; other site 314315002525 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 314315002526 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 314315002527 dimer interface [polypeptide binding]; other site 314315002528 conserved gate region; other site 314315002529 putative PBP binding loops; other site 314315002530 ABC-ATPase subunit interface; other site 314315002531 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 314315002532 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315002533 Walker A/P-loop; other site 314315002534 ATP binding site [chemical binding]; other site 314315002535 Q-loop/lid; other site 314315002536 ABC transporter signature motif; other site 314315002537 Walker B; other site 314315002538 D-loop; other site 314315002539 H-loop/switch region; other site 314315002540 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 314315002541 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 314315002542 substrate binding pocket [chemical binding]; other site 314315002543 membrane-bound complex binding site; other site 314315002544 hinge residues; other site 314315002545 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 314315002546 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 314315002547 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 314315002548 putative active site [active] 314315002549 catalytic site [active] 314315002550 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 314315002551 putative active site [active] 314315002552 catalytic site [active] 314315002553 Bacterial SH3 domain; Region: SH3_3; pfam08239 314315002554 Bacterial SH3 domain; Region: SH3_3; pfam08239 314315002555 Bacterial SH3 domain homologues; Region: SH3b; smart00287 314315002556 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 314315002557 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 314315002558 active site 314315002559 metal binding site [ion binding]; metal-binding site 314315002560 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 314315002561 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 314315002562 dimer interface [polypeptide binding]; other site 314315002563 motif 1; other site 314315002564 active site 314315002565 motif 2; other site 314315002566 motif 3; other site 314315002567 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 314315002568 anticodon binding site; other site 314315002569 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 314315002570 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 314315002571 dimer interface [polypeptide binding]; other site 314315002572 anticodon binding site; other site 314315002573 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 314315002574 homodimer interface [polypeptide binding]; other site 314315002575 motif 1; other site 314315002576 active site 314315002577 motif 2; other site 314315002578 GAD domain; Region: GAD; pfam02938 314315002579 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 314315002580 active site 314315002581 motif 3; other site 314315002582 methionine sulfoxide reductase B; Provisional; Region: PRK00222 314315002583 SelR domain; Region: SelR; pfam01641 314315002584 methionine sulfoxide reductase A; Provisional; Region: PRK14054 314315002585 Uncharacterized conserved protein [Function unknown]; Region: COG1284 314315002586 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 314315002587 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 314315002588 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 314315002589 endonuclease IV; Provisional; Region: PRK01060 314315002590 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 314315002591 AP (apurinic/apyrimidinic) site pocket; other site 314315002592 DNA interaction; other site 314315002593 Metal-binding active site; metal-binding site 314315002594 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 314315002595 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 314315002596 putative FMN binding site [chemical binding]; other site 314315002597 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 314315002598 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 314315002599 Yqey-like protein; Region: YqeY; pfam09424 314315002600 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 314315002601 PhoH-like protein; Region: PhoH; pfam02562 314315002602 metal-binding heat shock protein; Provisional; Region: PRK00016 314315002603 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 314315002604 GTPase Era; Reviewed; Region: era; PRK00089 314315002605 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 314315002606 G1 box; other site 314315002607 GTP/Mg2+ binding site [chemical binding]; other site 314315002608 Switch I region; other site 314315002609 G2 box; other site 314315002610 Switch II region; other site 314315002611 G3 box; other site 314315002612 G4 box; other site 314315002613 G5 box; other site 314315002614 KH domain; Region: KH_2; pfam07650 314315002615 Recombination protein O N terminal; Region: RecO_N; pfam11967 314315002616 DNA repair protein RecO; Region: reco; TIGR00613 314315002617 Recombination protein O C terminal; Region: RecO_C; pfam02565 314315002618 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 314315002619 dimer interface [polypeptide binding]; other site 314315002620 motif 1; other site 314315002621 active site 314315002622 motif 2; other site 314315002623 motif 3; other site 314315002624 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 314315002625 DALR anticodon binding domain; Region: DALR_1; pfam05746 314315002626 Uncharacterized conserved protein [Function unknown]; Region: COG3189 314315002627 DNA primase; Validated; Region: dnaG; PRK05667 314315002628 CHC2 zinc finger; Region: zf-CHC2; pfam01807 314315002629 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 314315002630 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 314315002631 active site 314315002632 metal binding site [ion binding]; metal-binding site 314315002633 interdomain interaction site; other site 314315002634 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 314315002635 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 314315002636 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 314315002637 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 314315002638 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314315002639 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 314315002640 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 314315002641 DNA binding residues [nucleotide binding] 314315002642 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 314315002643 Family of unknown function (DUF633); Region: DUF633; pfam04816 314315002644 Uncharacterized conserved protein [Function unknown]; Region: COG0327 314315002645 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 314315002646 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 314315002647 Uncharacterized conserved protein [Function unknown]; Region: COG0327 314315002648 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 314315002649 peptidase T; Region: peptidase-T; TIGR01882 314315002650 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 314315002651 metal binding site [ion binding]; metal-binding site 314315002652 dimer interface [polypeptide binding]; other site 314315002653 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 314315002654 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 314315002655 active site 314315002656 catalytic residue [active] 314315002657 dimer interface [polypeptide binding]; other site 314315002658 Tim44-like domain; Region: Tim44; cl09208 314315002659 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 314315002660 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 314315002661 nucleophilic elbow; other site 314315002662 catalytic triad; other site 314315002663 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 314315002664 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 314315002665 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 314315002666 shikimate binding site; other site 314315002667 NAD(P) binding site [chemical binding]; other site 314315002668 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 314315002669 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 314315002670 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 314315002671 active site 314315002672 dimer interface [polypeptide binding]; other site 314315002673 metal binding site [ion binding]; metal-binding site 314315002674 shikimate kinase; Reviewed; Region: aroK; PRK00131 314315002675 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 314315002676 ADP binding site [chemical binding]; other site 314315002677 magnesium binding site [ion binding]; other site 314315002678 putative shikimate binding site; other site 314315002679 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 314315002680 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 314315002681 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 314315002682 Peptidase family C69; Region: Peptidase_C69; pfam03577 314315002683 4-oxalocrotonate tautomerase; Provisional; Region: PRK02220 314315002684 active site 1 [active] 314315002685 dimer interface [polypeptide binding]; other site 314315002686 hexamer interface [polypeptide binding]; other site 314315002687 active site 2 [active] 314315002688 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 314315002689 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 314315002690 active site 314315002691 motif I; other site 314315002692 motif II; other site 314315002693 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 314315002694 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 314315002695 putative transposase OrfB; Reviewed; Region: PHA02517 314315002696 HTH-like domain; Region: HTH_21; pfam13276 314315002697 Integrase core domain; Region: rve; pfam00665 314315002698 Integrase core domain; Region: rve_2; pfam13333 314315002699 Helix-turn-helix domain; Region: HTH_28; pfam13518 314315002700 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 314315002701 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 314315002702 homotetramer interface [polypeptide binding]; other site 314315002703 FMN binding site [chemical binding]; other site 314315002704 homodimer contacts [polypeptide binding]; other site 314315002705 putative active site [active] 314315002706 putative substrate binding site [chemical binding]; other site 314315002707 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 314315002708 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 314315002709 diphosphomevalonate decarboxylase; Region: PLN02407 314315002710 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 314315002711 mevalonate kinase; Region: mevalon_kin; TIGR00549 314315002712 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 314315002713 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 314315002714 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 314315002715 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 314315002716 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 314315002717 Part of AAA domain; Region: AAA_19; pfam13245 314315002718 Family description; Region: UvrD_C_2; pfam13538 314315002719 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 314315002720 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 314315002721 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 314315002722 active site 314315002723 catalytic site [active] 314315002724 substrate binding site [chemical binding]; other site 314315002725 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 314315002726 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 314315002727 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 314315002728 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 314315002729 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 314315002730 putative dimer interface [polypeptide binding]; other site 314315002731 putative anticodon binding site; other site 314315002732 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 314315002733 homodimer interface [polypeptide binding]; other site 314315002734 motif 1; other site 314315002735 motif 2; other site 314315002736 active site 314315002737 motif 3; other site 314315002738 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 314315002739 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 314315002740 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 314315002741 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 314315002742 minor groove reading motif; other site 314315002743 helix-hairpin-helix signature motif; other site 314315002744 substrate binding pocket [chemical binding]; other site 314315002745 active site 314315002746 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 314315002747 Transglycosylase; Region: Transgly; pfam00912 314315002748 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 314315002749 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 314315002750 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 314315002751 hypothetical protein; Provisional; Region: PRK13660 314315002752 cell division protein GpsB; Provisional; Region: PRK14127 314315002753 DivIVA domain; Region: DivI1A_domain; TIGR03544 314315002754 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 314315002755 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 314315002756 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 314315002757 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 314315002758 Phosphoglycerate Dehydrogenase, 2-hydroxyacid dehydrogenase family; Region: PGDH_1; cd12155 314315002759 putative ligand binding site [chemical binding]; other site 314315002760 NAD binding site [chemical binding]; other site 314315002761 catalytic site [active] 314315002762 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 314315002763 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 314315002764 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 314315002765 active site 314315002766 DNA binding site [nucleotide binding] 314315002767 Int/Topo IB signature motif; other site 314315002768 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 314315002769 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 314315002770 catalytic Zn binding site [ion binding]; other site 314315002771 NAD(P) binding site [chemical binding]; other site 314315002772 structural Zn binding site [ion binding]; other site 314315002773 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 314315002774 Predicted transcriptional regulators [Transcription]; Region: COG1725 314315002775 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 314315002776 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315002777 Walker A/P-loop; other site 314315002778 ATP binding site [chemical binding]; other site 314315002779 Q-loop/lid; other site 314315002780 ABC transporter signature motif; other site 314315002781 Walker B; other site 314315002782 D-loop; other site 314315002783 H-loop/switch region; other site 314315002784 B3/4 domain; Region: B3_4; pfam03483 314315002785 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 314315002786 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 314315002787 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 314315002788 Predicted transcriptional regulator [Transcription]; Region: COG3655 314315002789 salt bridge; other site 314315002790 non-specific DNA binding site [nucleotide binding]; other site 314315002791 sequence-specific DNA binding site [nucleotide binding]; other site 314315002792 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 314315002793 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 314315002794 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315002795 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 314315002796 Walker A/P-loop; other site 314315002797 ATP binding site [chemical binding]; other site 314315002798 Q-loop/lid; other site 314315002799 ABC transporter signature motif; other site 314315002800 Walker B; other site 314315002801 D-loop; other site 314315002802 H-loop/switch region; other site 314315002803 MarR family; Region: MarR_2; pfam12802 314315002804 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 314315002805 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 314315002806 dimer interface [polypeptide binding]; other site 314315002807 putative radical transfer pathway; other site 314315002808 diiron center [ion binding]; other site 314315002809 tyrosyl radical; other site 314315002810 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 314315002811 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 314315002812 Class I ribonucleotide reductase; Region: RNR_I; cd01679 314315002813 active site 314315002814 dimer interface [polypeptide binding]; other site 314315002815 catalytic residues [active] 314315002816 effector binding site; other site 314315002817 R2 peptide binding site; other site 314315002818 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 314315002819 catalytic residues [active] 314315002820 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 314315002821 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 314315002822 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 314315002823 putative active site [active] 314315002824 catalytic site [active] 314315002825 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 314315002826 putative active site [active] 314315002827 catalytic site [active] 314315002828 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 314315002829 RNA/DNA hybrid binding site [nucleotide binding]; other site 314315002830 active site 314315002831 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 314315002832 DNA-binding site [nucleotide binding]; DNA binding site 314315002833 RNA-binding motif; other site 314315002834 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 314315002835 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 314315002836 Potassium binding sites [ion binding]; other site 314315002837 Cesium cation binding sites [ion binding]; other site 314315002838 lipoprotein signal peptidase; Provisional; Region: PRK14797 314315002839 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 314315002840 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 314315002841 RNA binding surface [nucleotide binding]; other site 314315002842 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 314315002843 active site 314315002844 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 314315002845 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314315002846 active site 314315002847 uracil transporter; Provisional; Region: PRK10720 314315002848 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 314315002849 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 314315002850 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 314315002851 dihydroorotase; Validated; Region: pyrC; PRK09357 314315002852 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 314315002853 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 314315002854 active site 314315002855 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 314315002856 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 314315002857 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 314315002858 catalytic site [active] 314315002859 subunit interface [polypeptide binding]; other site 314315002860 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 314315002861 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 314315002862 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 314315002863 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 314315002864 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 314315002865 ATP-grasp domain; Region: ATP-grasp_4; cl17255 314315002866 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 314315002867 IMP binding site; other site 314315002868 dimer interface [polypeptide binding]; other site 314315002869 interdomain contacts; other site 314315002870 partial ornithine binding site; other site 314315002871 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 314315002872 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 314315002873 FAD binding pocket [chemical binding]; other site 314315002874 FAD binding motif [chemical binding]; other site 314315002875 phosphate binding motif [ion binding]; other site 314315002876 beta-alpha-beta structure motif; other site 314315002877 NAD binding pocket [chemical binding]; other site 314315002878 Iron coordination center [ion binding]; other site 314315002879 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 314315002880 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 314315002881 heterodimer interface [polypeptide binding]; other site 314315002882 active site 314315002883 FMN binding site [chemical binding]; other site 314315002884 homodimer interface [polypeptide binding]; other site 314315002885 substrate binding site [chemical binding]; other site 314315002886 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 314315002887 active site 314315002888 dimer interface [polypeptide binding]; other site 314315002889 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314315002890 active site 314315002891 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 314315002892 Domain of unknown function (DUF814); Region: DUF814; pfam05670 314315002893 EDD domain protein, DegV family; Region: DegV; TIGR00762 314315002894 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 314315002895 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 314315002896 Haemolysin-III related; Region: HlyIII; cl03831 314315002897 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 314315002898 EDD domain protein, DegV family; Region: DegV; TIGR00762 314315002899 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 314315002900 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 314315002901 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314315002902 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 314315002903 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 314315002904 putative NAD(P) binding site [chemical binding]; other site 314315002905 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 314315002906 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 314315002907 active site 314315002908 catalytic residues [active] 314315002909 DNA binding site [nucleotide binding] 314315002910 Int/Topo IB signature motif; other site 314315002911 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 314315002912 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 314315002913 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 314315002914 Soluble P-type ATPase [General function prediction only]; Region: COG4087 314315002915 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 314315002916 DHH family; Region: DHH; pfam01368 314315002917 DHHA2 domain; Region: DHHA2; pfam02833 314315002918 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314315002919 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314315002920 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 314315002921 dimerization interface [polypeptide binding]; other site 314315002922 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 314315002923 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 314315002924 FeS/SAM binding site; other site 314315002925 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 314315002926 Pyruvate formate lyase 1; Region: PFL1; cd01678 314315002927 coenzyme A binding site [chemical binding]; other site 314315002928 active site 314315002929 catalytic residues [active] 314315002930 glycine loop; other site 314315002931 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 314315002932 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 314315002933 CAP-like domain; other site 314315002934 active site 314315002935 primary dimer interface [polypeptide binding]; other site 314315002936 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 314315002937 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 314315002938 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 314315002939 ATP binding site [chemical binding]; other site 314315002940 Mg2+ binding site [ion binding]; other site 314315002941 G-X-G motif; other site 314315002942 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 314315002943 anchoring element; other site 314315002944 dimer interface [polypeptide binding]; other site 314315002945 ATP binding site [chemical binding]; other site 314315002946 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 314315002947 active site 314315002948 putative metal-binding site [ion binding]; other site 314315002949 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 314315002950 membrane protein; Provisional; Region: PRK14392 314315002951 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 314315002952 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 314315002953 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 314315002954 Walker A/P-loop; other site 314315002955 ATP binding site [chemical binding]; other site 314315002956 Q-loop/lid; other site 314315002957 ABC transporter signature motif; other site 314315002958 Walker B; other site 314315002959 D-loop; other site 314315002960 H-loop/switch region; other site 314315002961 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 314315002962 dimer interface [polypeptide binding]; other site 314315002963 substrate binding site [chemical binding]; other site 314315002964 ATP binding site [chemical binding]; other site 314315002965 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 314315002966 acetolactate synthase; Reviewed; Region: PRK08617 314315002967 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 314315002968 PYR/PP interface [polypeptide binding]; other site 314315002969 dimer interface [polypeptide binding]; other site 314315002970 TPP binding site [chemical binding]; other site 314315002971 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 314315002972 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 314315002973 TPP-binding site [chemical binding]; other site 314315002974 dimer interface [polypeptide binding]; other site 314315002975 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 314315002976 active site 314315002977 catalytic residues [active] 314315002978 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 314315002979 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 314315002980 Walker A motif; other site 314315002981 ATP binding site [chemical binding]; other site 314315002982 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 314315002983 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 314315002984 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 314315002985 active site 314315002986 HslU subunit interaction site [polypeptide binding]; other site 314315002987 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 314315002988 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 314315002989 active site 314315002990 DNA binding site [nucleotide binding] 314315002991 Int/Topo IB signature motif; other site 314315002992 Glucose inhibited division protein A; Region: GIDA; pfam01134 314315002993 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 314315002994 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 314315002995 Glucose inhibited division protein A; Region: GIDA; pfam01134 314315002996 DNA topoisomerase I; Validated; Region: PRK05582 314315002997 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 314315002998 active site 314315002999 interdomain interaction site; other site 314315003000 putative metal-binding site [ion binding]; other site 314315003001 nucleotide binding site [chemical binding]; other site 314315003002 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 314315003003 domain I; other site 314315003004 DNA binding groove [nucleotide binding] 314315003005 phosphate binding site [ion binding]; other site 314315003006 domain II; other site 314315003007 domain III; other site 314315003008 nucleotide binding site [chemical binding]; other site 314315003009 catalytic site [active] 314315003010 domain IV; other site 314315003011 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 314315003012 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 314315003013 Predicted transcriptional regulator [Transcription]; Region: COG1959 314315003014 Transcriptional regulator; Region: Rrf2; pfam02082 314315003015 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 314315003016 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314315003017 NAD(P) binding site [chemical binding]; other site 314315003018 active site 314315003019 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 314315003020 DNA protecting protein DprA; Region: dprA; TIGR00732 314315003021 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 314315003022 RNA/DNA hybrid binding site [nucleotide binding]; other site 314315003023 active site 314315003024 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 314315003025 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 314315003026 GTP/Mg2+ binding site [chemical binding]; other site 314315003027 G4 box; other site 314315003028 G5 box; other site 314315003029 50S ribosome-binding GTPase; Region: MMR_HSR1; pfam01926 314315003030 G1 box; other site 314315003031 G1 box; other site 314315003032 GTP/Mg2+ binding site [chemical binding]; other site 314315003033 Switch I region; other site 314315003034 G2 box; other site 314315003035 G2 box; other site 314315003036 G3 box; other site 314315003037 G3 box; other site 314315003038 Switch II region; other site 314315003039 Switch II region; other site 314315003040 G4 box; other site 314315003041 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 314315003042 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 314315003043 Catalytic site [active] 314315003044 hypothetical protein; Provisional; Region: PRK13672 314315003045 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; pfam09911 314315003046 Members of the SGNH-hydrolase superfamily, 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_YpmR_like; cd04506 314315003047 active site 314315003048 catalytic triad [active] 314315003049 oxyanion hole [active] 314315003050 EDD domain protein, DegV family; Region: DegV; TIGR00762 314315003051 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 314315003052 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 314315003053 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 314315003054 folate binding site [chemical binding]; other site 314315003055 NADP+ binding site [chemical binding]; other site 314315003056 thymidylate synthase; Region: thym_sym; TIGR03284 314315003057 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 314315003058 dimerization interface [polypeptide binding]; other site 314315003059 active site 314315003060 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 314315003061 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314315003062 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314315003063 ABC transporter; Region: ABC_tran_2; pfam12848 314315003064 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314315003065 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 314315003066 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 314315003067 active site 314315003068 NTP binding site [chemical binding]; other site 314315003069 metal binding triad [ion binding]; metal-binding site 314315003070 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 314315003071 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 314315003072 Uncharacterized conserved protein [Function unknown]; Region: COG1284 314315003073 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 314315003074 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 314315003075 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 314315003076 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 314315003077 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 314315003078 putative NAD(P) binding site [chemical binding]; other site 314315003079 dimer interface [polypeptide binding]; other site 314315003080 Predicted transcriptional regulators [Transcription]; Region: COG1733 314315003081 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 314315003082 Chitin binding domain; Region: Chitin_bind_3; pfam03067 314315003083 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 314315003084 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 314315003085 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 314315003086 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 314315003087 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 314315003088 Walker A/P-loop; other site 314315003089 ATP binding site [chemical binding]; other site 314315003090 Q-loop/lid; other site 314315003091 ABC transporter signature motif; other site 314315003092 Walker B; other site 314315003093 D-loop; other site 314315003094 H-loop/switch region; other site 314315003095 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 314315003096 binding surface 314315003097 TPR motif; other site 314315003098 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 314315003099 binding surface 314315003100 TPR motif; other site 314315003101 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 314315003102 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 314315003103 binding surface 314315003104 TPR motif; other site 314315003105 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 314315003106 IHF dimer interface [polypeptide binding]; other site 314315003107 IHF - DNA interface [nucleotide binding]; other site 314315003108 GTP-binding protein Der; Reviewed; Region: PRK00093 314315003109 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 314315003110 G1 box; other site 314315003111 GTP/Mg2+ binding site [chemical binding]; other site 314315003112 Switch I region; other site 314315003113 G2 box; other site 314315003114 Switch II region; other site 314315003115 G3 box; other site 314315003116 G4 box; other site 314315003117 G5 box; other site 314315003118 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 314315003119 G1 box; other site 314315003120 GTP/Mg2+ binding site [chemical binding]; other site 314315003121 Switch I region; other site 314315003122 G2 box; other site 314315003123 G3 box; other site 314315003124 Switch II region; other site 314315003125 G4 box; other site 314315003126 G5 box; other site 314315003127 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 314315003128 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 314315003129 RNA binding site [nucleotide binding]; other site 314315003130 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 314315003131 RNA binding site [nucleotide binding]; other site 314315003132 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 314315003133 RNA binding site [nucleotide binding]; other site 314315003134 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 314315003135 RNA binding site [nucleotide binding]; other site 314315003136 cytidylate kinase; Provisional; Region: cmk; PRK00023 314315003137 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 314315003138 CMP-binding site; other site 314315003139 The sites determining sugar specificity; other site 314315003140 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314315003141 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 314315003142 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 314315003143 ATP binding site [chemical binding]; other site 314315003144 putative Mg++ binding site [ion binding]; other site 314315003145 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 314315003146 nucleotide binding region [chemical binding]; other site 314315003147 ATP-binding site [chemical binding]; other site 314315003148 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 314315003149 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 314315003150 Predicted membrane protein [Function unknown]; Region: COG3601 314315003151 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 314315003152 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 314315003153 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 314315003154 RNA binding surface [nucleotide binding]; other site 314315003155 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 314315003156 active site 314315003157 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 314315003158 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 314315003159 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 314315003160 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 314315003161 active site 314315003162 Int/Topo IB signature motif; other site 314315003163 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 314315003164 metal binding site 2 [ion binding]; metal-binding site 314315003165 putative DNA binding helix; other site 314315003166 metal binding site 1 [ion binding]; metal-binding site 314315003167 dimer interface [polypeptide binding]; other site 314315003168 structural Zn2+ binding site [ion binding]; other site 314315003169 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 314315003170 S1 domain; Region: S1_2; pfam13509 314315003171 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 314315003172 Protein of unknown function (DUF441); Region: DUF441; pfam04284 314315003173 pyruvate kinase; Provisional; Region: PRK06354 314315003174 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 314315003175 domain interfaces; other site 314315003176 active site 314315003177 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 314315003178 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 314315003179 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 314315003180 active site 314315003181 ADP/pyrophosphate binding site [chemical binding]; other site 314315003182 dimerization interface [polypeptide binding]; other site 314315003183 allosteric effector site; other site 314315003184 fructose-1,6-bisphosphate binding site; other site 314315003185 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 314315003186 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 314315003187 active site 314315003188 PHP Thumb interface [polypeptide binding]; other site 314315003189 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 314315003190 generic binding surface I; other site 314315003191 generic binding surface II; other site 314315003192 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 314315003193 inner membrane transporter YjeM; Provisional; Region: PRK15238 314315003194 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 314315003195 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 314315003196 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 314315003197 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 314315003198 Clp amino terminal domain; Region: Clp_N; pfam02861 314315003199 Clp amino terminal domain; Region: Clp_N; pfam02861 314315003200 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 314315003201 Walker A motif; other site 314315003202 ATP binding site [chemical binding]; other site 314315003203 Walker B motif; other site 314315003204 arginine finger; other site 314315003205 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 314315003206 Walker A motif; other site 314315003207 ATP binding site [chemical binding]; other site 314315003208 Walker B motif; other site 314315003209 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 314315003210 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 314315003211 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314315003212 NAD(P) binding site [chemical binding]; other site 314315003213 active site 314315003214 ribonuclease Z; Region: RNase_Z; TIGR02651 314315003215 Acyltransferase family; Region: Acyl_transf_3; pfam01757 314315003216 yrhL-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 active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 314315003217 catalytic triad [active] 314315003218 catalytic triad [active] 314315003219 oxyanion hole [active] 314315003220 GTPase CgtA; Reviewed; Region: obgE; PRK12297 314315003221 GTP1/OBG; Region: GTP1_OBG; pfam01018 314315003222 Obg GTPase; Region: Obg; cd01898 314315003223 G1 box; other site 314315003224 GTP/Mg2+ binding site [chemical binding]; other site 314315003225 Switch I region; other site 314315003226 G2 box; other site 314315003227 G3 box; other site 314315003228 Switch II region; other site 314315003229 G4 box; other site 314315003230 G5 box; other site 314315003231 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 314315003232 Uncharacterized conserved protein [Function unknown]; Region: COG3589 314315003233 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 314315003234 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 314315003235 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 314315003236 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 314315003237 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 314315003238 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 314315003239 putative substrate binding site [chemical binding]; other site 314315003240 putative ATP binding site [chemical binding]; other site 314315003241 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 314315003242 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 314315003243 active site 314315003244 phosphorylation site [posttranslational modification] 314315003245 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 314315003246 active site 314315003247 P-loop; other site 314315003248 phosphorylation site [posttranslational modification] 314315003249 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 314315003250 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315003251 Walker A/P-loop; other site 314315003252 ATP binding site [chemical binding]; other site 314315003253 Q-loop/lid; other site 314315003254 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 314315003255 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 314315003256 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315003257 ABC transporter signature motif; other site 314315003258 Walker B; other site 314315003259 D-loop; other site 314315003260 H-loop/switch region; other site 314315003261 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315003262 Walker A/P-loop; other site 314315003263 ATP binding site [chemical binding]; other site 314315003264 Q-loop/lid; other site 314315003265 ABC transporter signature motif; other site 314315003266 Walker B; other site 314315003267 D-loop; other site 314315003268 H-loop/switch region; other site 314315003269 Uncharacterized conserved protein [Function unknown]; Region: COG1284 314315003270 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 314315003271 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 314315003272 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 314315003273 cinnamyl-alcohol dehydrogenase family protein; Region: PLN02662 314315003274 NADP binding site [chemical binding]; other site 314315003275 putative substrate binding site [chemical binding]; other site 314315003276 active site 314315003277 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 314315003278 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314315003279 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 314315003280 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 314315003281 GIY-YIG motif/motif A; other site 314315003282 active site 314315003283 catalytic site [active] 314315003284 putative DNA binding site [nucleotide binding]; other site 314315003285 metal binding site [ion binding]; metal-binding site 314315003286 UvrB/uvrC motif; Region: UVR; pfam02151 314315003287 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 314315003288 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 314315003289 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 314315003290 Walker A/P-loop; other site 314315003291 ATP binding site [chemical binding]; other site 314315003292 Q-loop/lid; other site 314315003293 ABC transporter signature motif; other site 314315003294 Walker B; other site 314315003295 D-loop; other site 314315003296 H-loop/switch region; other site 314315003297 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 314315003298 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 314315003299 substrate binding pocket [chemical binding]; other site 314315003300 membrane-bound complex binding site; other site 314315003301 hinge residues; other site 314315003302 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 314315003303 dimer interface [polypeptide binding]; other site 314315003304 conserved gate region; other site 314315003305 putative PBP binding loops; other site 314315003306 ABC-ATPase subunit interface; other site 314315003307 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_u4; cd11541 314315003308 putative metal binding site [ion binding]; other site 314315003309 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 314315003310 G1 box; other site 314315003311 GTP/Mg2+ binding site [chemical binding]; other site 314315003312 Switch I region; other site 314315003313 G2 box; other site 314315003314 G3 box; other site 314315003315 Switch II region; other site 314315003316 G4 box; other site 314315003317 G5 box; other site 314315003318 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 314315003319 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 314315003320 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 314315003321 Walker A motif; other site 314315003322 ATP binding site [chemical binding]; other site 314315003323 Walker B motif; other site 314315003324 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 314315003325 trigger factor; Provisional; Region: tig; PRK01490 314315003326 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 314315003327 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 314315003328 elongation factor Tu; Reviewed; Region: PRK00049 314315003329 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 314315003330 G1 box; other site 314315003331 GEF interaction site [polypeptide binding]; other site 314315003332 GTP/Mg2+ binding site [chemical binding]; other site 314315003333 Switch I region; other site 314315003334 G2 box; other site 314315003335 G3 box; other site 314315003336 Switch II region; other site 314315003337 G4 box; other site 314315003338 G5 box; other site 314315003339 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 314315003340 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 314315003341 Antibiotic Binding Site [chemical binding]; other site 314315003342 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 314315003343 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 314315003344 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 314315003345 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 314315003346 16S/18S rRNA binding site [nucleotide binding]; other site 314315003347 S13e-L30e interaction site [polypeptide binding]; other site 314315003348 25S rRNA binding site [nucleotide binding]; other site 314315003349 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 314315003350 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 314315003351 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 314315003352 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 314315003353 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 314315003354 Competence protein; Region: Competence; pfam03772 314315003355 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 314315003356 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 314315003357 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 314315003358 catalytic motif [active] 314315003359 Zn binding site [ion binding]; other site 314315003360 SLBB domain; Region: SLBB; pfam10531 314315003361 comEA protein; Region: comE; TIGR01259 314315003362 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 314315003363 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 314315003364 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 314315003365 protein binding site [polypeptide binding]; other site 314315003366 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 314315003367 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 314315003368 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 314315003369 active site 314315003370 (T/H)XGH motif; other site 314315003371 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 314315003372 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 314315003373 S-adenosylmethionine binding site [chemical binding]; other site 314315003374 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; pfam09902 314315003375 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 314315003376 hypothetical protein; Provisional; Region: PRK13666 314315003377 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 314315003378 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 314315003379 G1 box; other site 314315003380 putative GEF interaction site [polypeptide binding]; other site 314315003381 GTP/Mg2+ binding site [chemical binding]; other site 314315003382 Switch I region; other site 314315003383 G2 box; other site 314315003384 G3 box; other site 314315003385 Switch II region; other site 314315003386 G4 box; other site 314315003387 G5 box; other site 314315003388 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 314315003389 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 314315003390 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 314315003391 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 314315003392 active site 314315003393 hypothetical protein; Provisional; Region: PRK04387 314315003394 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 314315003395 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 314315003396 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314315003397 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314315003398 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 314315003399 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 314315003400 E3 interaction surface; other site 314315003401 lipoyl attachment site [posttranslational modification]; other site 314315003402 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 314315003403 E3 interaction surface; other site 314315003404 lipoyl attachment site [posttranslational modification]; other site 314315003405 e3 binding domain; Region: E3_binding; pfam02817 314315003406 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 314315003407 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 314315003408 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 314315003409 alpha subunit interface [polypeptide binding]; other site 314315003410 TPP binding site [chemical binding]; other site 314315003411 heterodimer interface [polypeptide binding]; other site 314315003412 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 314315003413 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 314315003414 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 314315003415 TPP-binding site [chemical binding]; other site 314315003416 heterodimer interface [polypeptide binding]; other site 314315003417 tetramer interface [polypeptide binding]; other site 314315003418 phosphorylation loop region [posttranslational modification] 314315003419 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 314315003420 active site 314315003421 catalytic residues [active] 314315003422 metal binding site [ion binding]; metal-binding site 314315003423 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 314315003424 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314315003425 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 314315003426 Walker A/P-loop; other site 314315003427 ATP binding site [chemical binding]; other site 314315003428 Q-loop/lid; other site 314315003429 ABC transporter signature motif; other site 314315003430 Walker B; other site 314315003431 D-loop; other site 314315003432 H-loop/switch region; other site 314315003433 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 314315003434 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314315003435 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315003436 Walker A/P-loop; other site 314315003437 ATP binding site [chemical binding]; other site 314315003438 Q-loop/lid; other site 314315003439 ABC transporter signature motif; other site 314315003440 Walker B; other site 314315003441 D-loop; other site 314315003442 H-loop/switch region; other site 314315003443 Protein of unknown function (DUF1447); Region: DUF1447; pfam07288 314315003444 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 314315003445 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 314315003446 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 314315003447 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 314315003448 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 314315003449 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 314315003450 Thiamine-precursor transporter protein (ThiW); Region: ThiW; pfam09512 314315003451 Putative transcription activator [Transcription]; Region: TenA; COG0819 314315003452 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 314315003453 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 314315003454 nudix motif; other site 314315003455 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 314315003456 dihydropteroate synthase; Region: DHPS; TIGR01496 314315003457 substrate binding pocket [chemical binding]; other site 314315003458 dimer interface [polypeptide binding]; other site 314315003459 inhibitor binding site; inhibition site 314315003460 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 314315003461 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314315003462 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 314315003463 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 314315003464 GTP cyclohydrolase I; Provisional; Region: PLN03044 314315003465 active site 314315003466 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 314315003467 catalytic center binding site [active] 314315003468 ATP binding site [chemical binding]; other site 314315003469 Dihydroneopterin aldolase; Region: FolB; smart00905 314315003470 active site 314315003471 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 314315003472 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 314315003473 Domain of unknown function (DUF378); Region: DUF378; pfam04070 314315003474 AsnC family; Region: AsnC_trans_reg; pfam01037 314315003475 Domain of unknown function (DUF4041); Region: DUF4041; pfam13250 314315003476 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 314315003477 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 314315003478 FeS assembly protein SufB; Region: sufB; TIGR01980 314315003479 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 314315003480 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 314315003481 trimerization site [polypeptide binding]; other site 314315003482 active site 314315003483 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 314315003484 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 314315003485 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314315003486 catalytic residue [active] 314315003487 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 314315003488 FeS assembly protein SufD; Region: sufD; TIGR01981 314315003489 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 314315003490 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 314315003491 Walker A/P-loop; other site 314315003492 ATP binding site [chemical binding]; other site 314315003493 Q-loop/lid; other site 314315003494 ABC transporter signature motif; other site 314315003495 Walker B; other site 314315003496 D-loop; other site 314315003497 H-loop/switch region; other site 314315003498 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 314315003499 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 314315003500 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 314315003501 dimer interface [polypeptide binding]; other site 314315003502 conserved gate region; other site 314315003503 putative PBP binding loops; other site 314315003504 ABC-ATPase subunit interface; other site 314315003505 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 314315003506 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 314315003507 Walker A/P-loop; other site 314315003508 ATP binding site [chemical binding]; other site 314315003509 Q-loop/lid; other site 314315003510 ABC transporter signature motif; other site 314315003511 Walker B; other site 314315003512 D-loop; other site 314315003513 H-loop/switch region; other site 314315003514 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 314315003515 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 314315003516 lipoyl attachment site [posttranslational modification]; other site 314315003517 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 314315003518 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 314315003519 Haemolytic domain; Region: Haemolytic; cl00506 314315003520 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 314315003521 rod shape-determining protein MreB; Provisional; Region: PRK13930 314315003522 MreB and similar proteins; Region: MreB_like; cd10225 314315003523 nucleotide binding site [chemical binding]; other site 314315003524 Mg binding site [ion binding]; other site 314315003525 putative protofilament interaction site [polypeptide binding]; other site 314315003526 RodZ interaction site [polypeptide binding]; other site 314315003527 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 314315003528 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 314315003529 hinge; other site 314315003530 active site 314315003531 Protein of unknown function (DUF1146); Region: DUF1146; pfam06612 314315003532 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 314315003533 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 314315003534 gamma subunit interface [polypeptide binding]; other site 314315003535 epsilon subunit interface [polypeptide binding]; other site 314315003536 LBP interface [polypeptide binding]; other site 314315003537 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 314315003538 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 314315003539 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 314315003540 alpha subunit interaction interface [polypeptide binding]; other site 314315003541 Walker A motif; other site 314315003542 ATP binding site [chemical binding]; other site 314315003543 Walker B motif; other site 314315003544 inhibitor binding site; inhibition site 314315003545 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 314315003546 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 314315003547 core domain interface [polypeptide binding]; other site 314315003548 delta subunit interface [polypeptide binding]; other site 314315003549 epsilon subunit interface [polypeptide binding]; other site 314315003550 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 314315003551 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 314315003552 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 314315003553 beta subunit interaction interface [polypeptide binding]; other site 314315003554 Walker A motif; other site 314315003555 ATP binding site [chemical binding]; other site 314315003556 Walker B motif; other site 314315003557 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 314315003558 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 314315003559 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 314315003560 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 314315003561 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 314315003562 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 314315003563 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 314315003564 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 314315003565 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314315003566 active site 314315003567 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 314315003568 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 314315003569 dimer interface [polypeptide binding]; other site 314315003570 active site 314315003571 glycine-pyridoxal phosphate binding site [chemical binding]; other site 314315003572 folate binding site [chemical binding]; other site 314315003573 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 314315003574 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 314315003575 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 314315003576 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 314315003577 S-adenosylmethionine binding site [chemical binding]; other site 314315003578 peptide chain release factor 1; Validated; Region: prfA; PRK00591 314315003579 This domain is found in peptide chain release factors; Region: PCRF; smart00937 314315003580 RF-1 domain; Region: RF-1; pfam00472 314315003581 thymidine kinase; Provisional; Region: PRK04296 314315003582 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 314315003583 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314315003584 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 314315003585 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 314315003586 catalytic triad [active] 314315003587 pyruvate phosphate dikinase; Provisional; Region: PRK09279 314315003588 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 314315003589 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 314315003590 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 314315003591 HTH domain; Region: HTH_11; pfam08279 314315003592 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 314315003593 FOG: CBS domain [General function prediction only]; Region: COG0517 314315003594 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 314315003595 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 314315003596 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314315003597 Zn2+ binding site [ion binding]; other site 314315003598 Mg2+ binding site [ion binding]; other site 314315003599 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 314315003600 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 314315003601 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 314315003602 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 314315003603 Beta-lactamase; Region: Beta-lactamase; pfam00144 314315003604 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 314315003605 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314315003606 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 314315003607 Walker A/P-loop; other site 314315003608 ATP binding site [chemical binding]; other site 314315003609 Q-loop/lid; other site 314315003610 ABC transporter signature motif; other site 314315003611 Walker B; other site 314315003612 D-loop; other site 314315003613 H-loop/switch region; other site 314315003614 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 314315003615 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314315003616 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315003617 Walker A/P-loop; other site 314315003618 ATP binding site [chemical binding]; other site 314315003619 Q-loop/lid; other site 314315003620 ABC transporter signature motif; other site 314315003621 Walker B; other site 314315003622 D-loop; other site 314315003623 H-loop/switch region; other site 314315003624 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 314315003625 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314315003626 Ion transport protein; Region: Ion_trans; pfam00520 314315003627 Ion channel; Region: Ion_trans_2; pfam07885 314315003628 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 314315003629 Helix-turn-helix domain; Region: HTH_38; pfam13936 314315003630 Integrase core domain; Region: rve; pfam00665 314315003631 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 314315003632 DNA-binding site [nucleotide binding]; DNA binding site 314315003633 RNA-binding motif; other site 314315003634 CAAX protease self-immunity; Region: Abi; pfam02517 314315003635 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 314315003636 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 314315003637 active site 314315003638 dimer interfaces [polypeptide binding]; other site 314315003639 catalytic residues [active] 314315003640 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 314315003641 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 314315003642 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314315003643 DNA polymerase IV; Reviewed; Region: PRK03103 314315003644 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 314315003645 active site 314315003646 DNA binding site [nucleotide binding] 314315003647 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314315003648 K+ potassium transporter; Region: K_trans; pfam02705 314315003649 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 314315003650 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 314315003651 beta-galactosidase; Region: BGL; TIGR03356 314315003652 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 314315003653 amphipathic channel; other site 314315003654 Asn-Pro-Ala signature motifs; other site 314315003655 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 314315003656 Ligand Binding Site [chemical binding]; other site 314315003657 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 314315003658 putative active site [active] 314315003659 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 314315003660 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 314315003661 active site 314315003662 dimer interface [polypeptide binding]; other site 314315003663 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 314315003664 dimer interface [polypeptide binding]; other site 314315003665 active site 314315003666 Transposase domain (DUF772); Region: DUF772; pfam05598 314315003667 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 314315003668 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 314315003669 Cytochrome P450; Region: p450; cl12078 314315003670 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 314315003671 Transposase; Region: HTH_Tnp_1; pfam01527 314315003672 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 314315003673 HTH-like domain; Region: HTH_21; pfam13276 314315003674 Integrase core domain; Region: rve; pfam00665 314315003675 Integrase core domain; Region: rve_2; pfam13333 314315003676 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 314315003677 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 314315003678 zinc binding site [ion binding]; other site 314315003679 putative ligand binding site [chemical binding]; other site 314315003680 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 314315003681 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 314315003682 TM-ABC transporter signature motif; other site 314315003683 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315003684 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 314315003685 Walker A/P-loop; other site 314315003686 ATP binding site [chemical binding]; other site 314315003687 Q-loop/lid; other site 314315003688 ABC transporter signature motif; other site 314315003689 Walker B; other site 314315003690 D-loop; other site 314315003691 H-loop/switch region; other site 314315003692 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 314315003693 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 314315003694 PYR/PP interface [polypeptide binding]; other site 314315003695 dimer interface [polypeptide binding]; other site 314315003696 tetramer interface [polypeptide binding]; other site 314315003697 TPP binding site [chemical binding]; other site 314315003698 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 314315003699 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 314315003700 TPP-binding site [chemical binding]; other site 314315003701 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 314315003702 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 314315003703 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 314315003704 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 314315003705 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 314315003706 DNA binding residues [nucleotide binding] 314315003707 putative dimer interface [polypeptide binding]; other site 314315003708 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314315003709 NADH(P)-binding; Region: NAD_binding_10; pfam13460 314315003710 NAD(P) binding site [chemical binding]; other site 314315003711 active site 314315003712 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 314315003713 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 314315003714 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 314315003715 active site 314315003716 catalytic triad [active] 314315003717 oxyanion hole [active] 314315003718 YdjC-like protein; Region: YdjC; pfam04794 314315003719 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 314315003720 HPr interaction site; other site 314315003721 glycerol kinase (GK) interaction site [polypeptide binding]; other site 314315003722 active site 314315003723 phosphorylation site [posttranslational modification] 314315003724 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 314315003725 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 314315003726 Ca binding site [ion binding]; other site 314315003727 active site 314315003728 catalytic site [active] 314315003729 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 314315003730 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 314315003731 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 314315003732 active site turn [active] 314315003733 phosphorylation site [posttranslational modification] 314315003734 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 314315003735 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 314315003736 DNA-binding site [nucleotide binding]; DNA binding site 314315003737 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 314315003738 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 314315003739 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 314315003740 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 314315003741 Sugar transport protein; Region: Sugar_transport; pfam06800 314315003742 VanZ like family; Region: VanZ; cl01971 314315003743 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314315003744 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 314315003745 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 314315003746 Sulfatase; Region: Sulfatase; pfam00884 314315003747 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 314315003748 Na binding site [ion binding]; other site 314315003749 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 314315003750 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 314315003751 active site 314315003752 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 314315003753 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314315003754 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 314315003755 dimerization interface [polypeptide binding]; other site 314315003756 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 314315003757 dimer interface [polypeptide binding]; other site 314315003758 phosphorylation site [posttranslational modification] 314315003759 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 314315003760 ATP binding site [chemical binding]; other site 314315003761 Mg2+ binding site [ion binding]; other site 314315003762 G-X-G motif; other site 314315003763 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314315003764 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 314315003765 active site 314315003766 phosphorylation site [posttranslational modification] 314315003767 intermolecular recognition site; other site 314315003768 dimerization interface [polypeptide binding]; other site 314315003769 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 314315003770 DNA binding site [nucleotide binding] 314315003771 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 314315003772 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 314315003773 active site 314315003774 motif I; other site 314315003775 motif II; other site 314315003776 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 314315003777 amino acid transporter; Region: 2A0306; TIGR00909 314315003778 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 314315003779 triphosphoribosyl-dephospho-CoA synthase CitG; Region: citrate_citG; TIGR03125 314315003780 Transcriptional regulators [Transcription]; Region: GntR; COG1802 314315003781 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 314315003782 DNA-binding site [nucleotide binding]; DNA binding site 314315003783 FCD domain; Region: FCD; pfam07729 314315003784 oxaloacetate decarboxylase; Provisional; Region: PRK12331 314315003785 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 314315003786 active site 314315003787 catalytic residues [active] 314315003788 metal binding site [ion binding]; metal-binding site 314315003789 homodimer binding site [polypeptide binding]; other site 314315003790 2'-(5''-triphosphoribosyl)-3'- dephospho-CoA:apo-citrate lyase; Reviewed; Region: citX; PRK01392 314315003791 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 314315003792 Coenzyme A transferase; Region: CoA_trans; cl17247 314315003793 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 314315003794 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 314315003795 citrate lyase subunit gamma; Provisional; Region: PRK13253 314315003796 [citrate (pro-3S)-lyase] ligase; Region: cit_ly_ligase; TIGR00124 314315003797 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 314315003798 active site 314315003799 nucleotide binding site [chemical binding]; other site 314315003800 HIGH motif; other site 314315003801 KMSKS motif; other site 314315003802 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 314315003803 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; pfam03977 314315003804 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06549 314315003805 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 314315003806 carboxyltransferase (CT) interaction site; other site 314315003807 biotinylation site [posttranslational modification]; other site 314315003808 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 314315003809 Citrate transporter; Region: CitMHS; pfam03600 314315003810 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 314315003811 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 314315003812 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 314315003813 chaperone protein DnaJ; Provisional; Region: PRK14276 314315003814 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 314315003815 HSP70 interaction site [polypeptide binding]; other site 314315003816 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 314315003817 substrate binding site [polypeptide binding]; other site 314315003818 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 314315003819 Zn binding sites [ion binding]; other site 314315003820 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 314315003821 dimer interface [polypeptide binding]; other site 314315003822 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 314315003823 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 314315003824 nucleotide binding site [chemical binding]; other site 314315003825 NEF interaction site [polypeptide binding]; other site 314315003826 SBD interface [polypeptide binding]; other site 314315003827 GrpE; Region: GrpE; pfam01025 314315003828 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 314315003829 dimer interface [polypeptide binding]; other site 314315003830 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 314315003831 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 314315003832 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 314315003833 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 314315003834 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 314315003835 trimer interface [polypeptide binding]; other site 314315003836 active site 314315003837 substrate binding site [chemical binding]; other site 314315003838 CoA binding site [chemical binding]; other site 314315003839 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 314315003840 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 314315003841 FeS/SAM binding site; other site 314315003842 HemN C-terminal domain; Region: HemN_C; pfam06969 314315003843 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 314315003844 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 314315003845 active site 314315003846 Riboflavin kinase; Region: Flavokinase; pfam01687 314315003847 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 314315003848 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 314315003849 RNA binding site [nucleotide binding]; other site 314315003850 active site 314315003851 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 314315003852 N-glycosyltransferase; Provisional; Region: PRK11204 314315003853 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 314315003854 DXD motif; other site 314315003855 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 314315003856 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 314315003857 translation initiation factor IF-2; Region: IF-2; TIGR00487 314315003858 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 314315003859 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 314315003860 G1 box; other site 314315003861 putative GEF interaction site [polypeptide binding]; other site 314315003862 GTP/Mg2+ binding site [chemical binding]; other site 314315003863 Switch I region; other site 314315003864 G2 box; other site 314315003865 G3 box; other site 314315003866 Switch II region; other site 314315003867 G4 box; other site 314315003868 G5 box; other site 314315003869 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 314315003870 Translation-initiation factor 2; Region: IF-2; pfam11987 314315003871 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 314315003872 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 314315003873 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 314315003874 putative RNA binding cleft [nucleotide binding]; other site 314315003875 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 314315003876 NusA N-terminal domain; Region: NusA_N; pfam08529 314315003877 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 314315003878 RNA binding site [nucleotide binding]; other site 314315003879 homodimer interface [polypeptide binding]; other site 314315003880 NusA-like KH domain; Region: KH_5; pfam13184 314315003881 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 314315003882 G-X-X-G motif; other site 314315003883 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 314315003884 putative oligomer interface [polypeptide binding]; other site 314315003885 putative RNA binding site [nucleotide binding]; other site 314315003886 ribosome maturation protein RimP; Reviewed; Region: PRK00092 314315003887 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 314315003888 homodimer interface [polypeptide binding]; other site 314315003889 chemical substrate binding site [chemical binding]; other site 314315003890 oligomer interface [polypeptide binding]; other site 314315003891 metal binding site [ion binding]; metal-binding site 314315003892 GIY-YIG domain of uncharacterized bacterial protein structurally related to COG3410; Region: GIY-YIG_COG3410; cd10439 314315003893 GIY-YIG motif/motif A; other site 314315003894 putative active site [active] 314315003895 putative metal binding site [ion binding]; other site 314315003896 AAA ATPase domain; Region: AAA_16; pfam13191 314315003897 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 314315003898 Uncharacterized conserved protein [Function unknown]; Region: COG3410 314315003899 DNA polymerase III PolC; Validated; Region: polC; PRK00448 314315003900 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 314315003901 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 314315003902 generic binding surface II; other site 314315003903 generic binding surface I; other site 314315003904 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 314315003905 active site 314315003906 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 314315003907 active site 314315003908 catalytic site [active] 314315003909 substrate binding site [chemical binding]; other site 314315003910 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 314315003911 prolyl-tRNA synthetase; Provisional; Region: PRK09194 314315003912 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 314315003913 dimer interface [polypeptide binding]; other site 314315003914 motif 1; other site 314315003915 active site 314315003916 motif 2; other site 314315003917 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 314315003918 putative deacylase active site [active] 314315003919 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 314315003920 active site 314315003921 motif 3; other site 314315003922 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 314315003923 anticodon binding site; other site 314315003924 RIP metalloprotease RseP; Region: TIGR00054 314315003925 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 314315003926 active site 314315003927 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 314315003928 protein binding site [polypeptide binding]; other site 314315003929 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 314315003930 putative substrate binding region [chemical binding]; other site 314315003931 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 314315003932 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 314315003933 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 314315003934 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 314315003935 catalytic residue [active] 314315003936 putative FPP diphosphate binding site; other site 314315003937 putative FPP binding hydrophobic cleft; other site 314315003938 dimer interface [polypeptide binding]; other site 314315003939 putative IPP diphosphate binding site; other site 314315003940 Predicted membrane protein [Function unknown]; Region: COG1511 314315003941 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 314315003942 Bacillus haemolytic enterotoxin (HBL); Region: Bacillus_HBL; pfam05791 314315003943 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 314315003944 ribosome recycling factor; Reviewed; Region: frr; PRK00083 314315003945 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 314315003946 hinge region; other site 314315003947 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 314315003948 putative nucleotide binding site [chemical binding]; other site 314315003949 uridine monophosphate binding site [chemical binding]; other site 314315003950 homohexameric interface [polypeptide binding]; other site 314315003951 elongation factor Ts; Provisional; Region: tsf; PRK09377 314315003952 UBA/TS-N domain; Region: UBA; pfam00627 314315003953 Elongation factor TS; Region: EF_TS; pfam00889 314315003954 Elongation factor TS; Region: EF_TS; pfam00889 314315003955 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 314315003956 rRNA interaction site [nucleotide binding]; other site 314315003957 S8 interaction site; other site 314315003958 putative laminin-1 binding site; other site 314315003959 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 314315003960 GIY-YIG motif/motif A; other site 314315003961 putative active site [active] 314315003962 putative metal binding site [ion binding]; other site 314315003963 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 314315003964 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 314315003965 S-adenosylmethionine binding site [chemical binding]; other site 314315003966 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 314315003967 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 314315003968 putative acyl-acceptor binding pocket; other site 314315003969 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 314315003970 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 314315003971 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 314315003972 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 314315003973 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314315003974 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 314315003975 Walker A/P-loop; other site 314315003976 ATP binding site [chemical binding]; other site 314315003977 Q-loop/lid; other site 314315003978 ABC transporter signature motif; other site 314315003979 Walker B; other site 314315003980 D-loop; other site 314315003981 H-loop/switch region; other site 314315003982 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314315003983 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 314315003984 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315003985 Walker A/P-loop; other site 314315003986 ATP binding site [chemical binding]; other site 314315003987 Q-loop/lid; other site 314315003988 ABC transporter signature motif; other site 314315003989 Walker B; other site 314315003990 D-loop; other site 314315003991 H-loop/switch region; other site 314315003992 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 314315003993 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 314315003994 LexA repressor; Validated; Region: PRK00215 314315003995 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 314315003996 putative DNA binding site [nucleotide binding]; other site 314315003997 putative Zn2+ binding site [ion binding]; other site 314315003998 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 314315003999 Catalytic site [active] 314315004000 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314315004001 active site 314315004002 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 314315004003 DHH family; Region: DHH; pfam01368 314315004004 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; pfam10141 314315004005 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 314315004006 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 314315004007 NAD binding site [chemical binding]; other site 314315004008 homodimer interface [polypeptide binding]; other site 314315004009 active site 314315004010 substrate binding site [chemical binding]; other site 314315004011 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 314315004012 hypothetical protein; Provisional; Region: PRK00967 314315004013 WxL domain surface cell wall-binding; Region: WxL; pfam13731 314315004014 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 314315004015 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 314315004016 Transposase; Region: HTH_Tnp_1; pfam01527 314315004017 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 314315004018 HTH-like domain; Region: HTH_21; pfam13276 314315004019 Integrase core domain; Region: rve; pfam00665 314315004020 Integrase core domain; Region: rve_2; pfam13333 314315004021 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 314315004022 WxL domain surface cell wall-binding; Region: WxL; pfam13731 314315004023 DinB superfamily; Region: DinB_2; pfam12867 314315004024 GTP-binding protein LepA; Provisional; Region: PRK05433 314315004025 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 314315004026 G1 box; other site 314315004027 putative GEF interaction site [polypeptide binding]; other site 314315004028 GTP/Mg2+ binding site [chemical binding]; other site 314315004029 Switch I region; other site 314315004030 G2 box; other site 314315004031 G3 box; other site 314315004032 Switch II region; other site 314315004033 G4 box; other site 314315004034 G5 box; other site 314315004035 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 314315004036 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 314315004037 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 314315004038 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; pfam13930 314315004039 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 314315004040 TraX protein; Region: TraX; cl05434 314315004041 Protein of unknown function (DUF805); Region: DUF805; pfam05656 314315004042 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 314315004043 propionate/acetate kinase; Provisional; Region: PRK12379 314315004044 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 314315004045 Methyltransferase domain; Region: Methyltransf_26; pfam13659 314315004046 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 314315004047 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 314315004048 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 314315004049 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 314315004050 Walker A motif; other site 314315004051 ATP binding site [chemical binding]; other site 314315004052 Walker B motif; other site 314315004053 hypothetical protein; Validated; Region: PRK00110 314315004054 Predicted integral membrane protein [Function unknown]; Region: COG5652 314315004055 Double zinc ribbon; Region: DZR; pfam12773 314315004056 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 314315004057 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 314315004058 Conserved hypothetical protein 698; Region: Cons_hypoth698; pfam03601 314315004059 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314315004060 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314315004061 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 314315004062 dimerization interface [polypeptide binding]; other site 314315004063 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 314315004064 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 314315004065 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 314315004066 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 314315004067 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 314315004068 active site 314315004069 Predicted flavoprotein [General function prediction only]; Region: COG0431 314315004070 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 314315004071 Tic20-like protein; Region: Tic20; pfam09685 314315004072 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 314315004073 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 314315004074 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 314315004075 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 314315004076 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 314315004077 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 314315004078 DNA binding residues [nucleotide binding] 314315004079 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 314315004080 putative dimer interface [polypeptide binding]; other site 314315004081 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 314315004082 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314315004083 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 314315004084 non-specific DNA binding site [nucleotide binding]; other site 314315004085 salt bridge; other site 314315004086 sequence-specific DNA binding site [nucleotide binding]; other site 314315004087 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 314315004088 Aluminium resistance protein; Region: Alum_res; pfam06838 314315004089 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 314315004090 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 314315004091 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 314315004092 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 314315004093 active site residue [active] 314315004094 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 314315004095 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 314315004096 nucleotide binding site [chemical binding]; other site 314315004097 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 314315004098 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 314315004099 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 314315004100 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 314315004101 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 314315004102 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 314315004103 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 314315004104 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 314315004105 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 314315004106 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 314315004107 FAD binding domain; Region: FAD_binding_4; pfam01565 314315004108 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 314315004109 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 314315004110 active site 314315004111 putative catalytic site [active] 314315004112 DNA binding site [nucleotide binding] 314315004113 putative phosphate binding site [ion binding]; other site 314315004114 metal binding site A [ion binding]; metal-binding site 314315004115 AP binding site [nucleotide binding]; other site 314315004116 metal binding site B [ion binding]; metal-binding site 314315004117 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 314315004118 active site 314315004119 catalytic site [active] 314315004120 substrate binding site [chemical binding]; other site 314315004121 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 314315004122 EamA-like transporter family; Region: EamA; pfam00892 314315004123 EamA-like transporter family; Region: EamA; pfam00892 314315004124 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 314315004125 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314315004126 Coenzyme A binding pocket [chemical binding]; other site 314315004127 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 314315004128 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 314315004129 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 314315004130 ligand binding site [chemical binding]; other site 314315004131 active site 314315004132 UGI interface [polypeptide binding]; other site 314315004133 catalytic site [active] 314315004134 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 314315004135 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 314315004136 active site 314315004137 motif I; other site 314315004138 motif II; other site 314315004139 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 314315004140 Tubby C 2; Region: Tub_2; cl02043 314315004141 Protein of unknown function (DUF554); Region: DUF554; pfam04474 314315004142 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 314315004143 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314315004144 Coenzyme A binding pocket [chemical binding]; other site 314315004145 KDPG and KHG aldolase; Region: Aldolase; cl17259 314315004146 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 314315004147 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 314315004148 DNA-binding site [nucleotide binding]; DNA binding site 314315004149 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 314315004150 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314315004151 homodimer interface [polypeptide binding]; other site 314315004152 catalytic residue [active] 314315004153 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 314315004154 dimer interface [polypeptide binding]; other site 314315004155 substrate binding site [chemical binding]; other site 314315004156 ATP binding site [chemical binding]; other site 314315004157 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 314315004158 Protein of unknown function (DUF436); Region: DUF436; pfam04260 314315004159 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 314315004160 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 314315004161 glutaminase active site [active] 314315004162 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 314315004163 dimer interface [polypeptide binding]; other site 314315004164 active site 314315004165 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 314315004166 dimer interface [polypeptide binding]; other site 314315004167 active site 314315004168 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 314315004169 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 314315004170 active site 314315004171 substrate binding site [chemical binding]; other site 314315004172 metal binding site [ion binding]; metal-binding site 314315004173 YbbR-like protein; Region: YbbR; pfam07949 314315004174 YbbR-like protein; Region: YbbR; pfam07949 314315004175 Uncharacterized conserved protein [Function unknown]; Region: COG1624 314315004176 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 314315004177 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 314315004178 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 314315004179 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 314315004180 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 314315004181 dimer interface [polypeptide binding]; other site 314315004182 ABC-ATPase subunit interface; other site 314315004183 putative PBP binding loops; other site 314315004184 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 314315004185 dimer interface [polypeptide binding]; other site 314315004186 conserved gate region; other site 314315004187 putative PBP binding loops; other site 314315004188 ABC-ATPase subunit interface; other site 314315004189 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 314315004190 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 314315004191 Walker A/P-loop; other site 314315004192 ATP binding site [chemical binding]; other site 314315004193 Q-loop/lid; other site 314315004194 ABC transporter signature motif; other site 314315004195 Walker B; other site 314315004196 D-loop; other site 314315004197 H-loop/switch region; other site 314315004198 TOBE domain; Region: TOBE_2; pfam08402 314315004199 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 314315004200 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 314315004201 NADP binding site [chemical binding]; other site 314315004202 dimer interface [polypeptide binding]; other site 314315004203 CsbD-like; Region: CsbD; cl17424 314315004204 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 314315004205 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 314315004206 Walker A/P-loop; other site 314315004207 ATP binding site [chemical binding]; other site 314315004208 Q-loop/lid; other site 314315004209 ABC transporter signature motif; other site 314315004210 Walker B; other site 314315004211 D-loop; other site 314315004212 H-loop/switch region; other site 314315004213 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 314315004214 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 314315004215 FtsX-like permease family; Region: FtsX; pfam02687 314315004216 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 314315004217 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 314315004218 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 314315004219 active site 314315004220 phosphorylation site [posttranslational modification] 314315004221 intermolecular recognition site; other site 314315004222 dimerization interface [polypeptide binding]; other site 314315004223 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 314315004224 DNA binding residues [nucleotide binding] 314315004225 dimerization interface [polypeptide binding]; other site 314315004226 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 314315004227 Histidine kinase; Region: HisKA_3; pfam07730 314315004228 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 314315004229 ATP binding site [chemical binding]; other site 314315004230 Mg2+ binding site [ion binding]; other site 314315004231 G-X-G motif; other site 314315004232 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 314315004233 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 314315004234 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 314315004235 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 314315004236 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 314315004237 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 314315004238 Sugar specificity; other site 314315004239 Pyrimidine base specificity; other site 314315004240 ATP-binding site [chemical binding]; other site 314315004241 YceG-like family; Region: YceG; pfam02618 314315004242 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 314315004243 dimerization interface [polypeptide binding]; other site 314315004244 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 314315004245 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 314315004246 putative tRNA-binding site [nucleotide binding]; other site 314315004247 B3/4 domain; Region: B3_4; pfam03483 314315004248 tRNA synthetase B5 domain; Region: B5; smart00874 314315004249 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 314315004250 dimer interface [polypeptide binding]; other site 314315004251 motif 1; other site 314315004252 motif 3; other site 314315004253 motif 2; other site 314315004254 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 314315004255 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 314315004256 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 314315004257 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 314315004258 dimer interface [polypeptide binding]; other site 314315004259 motif 1; other site 314315004260 active site 314315004261 motif 2; other site 314315004262 motif 3; other site 314315004263 Predicted transcriptional regulators [Transcription]; Region: COG1733 314315004264 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 314315004265 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314315004266 Zn2+ binding site [ion binding]; other site 314315004267 Mg2+ binding site [ion binding]; other site 314315004268 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 314315004269 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 314315004270 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 314315004271 Acylphosphatase; Region: Acylphosphatase; pfam00708 314315004272 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 314315004273 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314315004274 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 314315004275 dimerization interface [polypeptide binding]; other site 314315004276 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 314315004277 dimer interface [polypeptide binding]; other site 314315004278 phosphorylation site [posttranslational modification] 314315004279 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 314315004280 ATP binding site [chemical binding]; other site 314315004281 Mg2+ binding site [ion binding]; other site 314315004282 G-X-G motif; other site 314315004283 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314315004284 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 314315004285 active site 314315004286 phosphorylation site [posttranslational modification] 314315004287 intermolecular recognition site; other site 314315004288 dimerization interface [polypeptide binding]; other site 314315004289 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 314315004290 DNA binding site [nucleotide binding] 314315004291 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 314315004292 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 314315004293 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 314315004294 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 314315004295 hypothetical protein; Provisional; Region: PRK13670 314315004296 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 314315004297 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 314315004298 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 314315004299 S-adenosylmethionine binding site [chemical binding]; other site 314315004300 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 314315004301 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314315004302 Zn2+ binding site [ion binding]; other site 314315004303 Mg2+ binding site [ion binding]; other site 314315004304 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 314315004305 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 314315004306 active site 314315004307 (T/H)XGH motif; other site 314315004308 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 314315004309 GTPase YqeH; Provisional; Region: PRK13796 314315004310 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 314315004311 GTP/Mg2+ binding site [chemical binding]; other site 314315004312 G4 box; other site 314315004313 G5 box; other site 314315004314 G1 box; other site 314315004315 Switch I region; other site 314315004316 G2 box; other site 314315004317 G3 box; other site 314315004318 Switch II region; other site 314315004319 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 314315004320 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 314315004321 active site 314315004322 motif I; other site 314315004323 motif II; other site 314315004324 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 314315004325 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 314315004326 putative NAD(P) binding site [chemical binding]; other site 314315004327 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 314315004328 23S rRNA binding site [nucleotide binding]; other site 314315004329 L21 binding site [polypeptide binding]; other site 314315004330 L13 binding site [polypeptide binding]; other site 314315004331 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 314315004332 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 314315004333 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 314315004334 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 314315004335 L-lactate oxidase; Region: L_lactate_ox; TIGR02708 314315004336 L-Lactate oxidase (LOX) FMN-binding domain. LOX is a member of the family of FMN-containing alpha-hydroxyacid oxidases and catalyzes the oxidation of l-lactate using molecular oxygen to generate pyruvate and H2O2. This family occurs in both prokaryotes...; Region: LOX_like_FMN; cd04737 314315004337 teramer interface [polypeptide binding]; other site 314315004338 active site 314315004339 FMN binding site [chemical binding]; other site 314315004340 catalytic residues [active] 314315004341 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 314315004342 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 314315004343 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 314315004344 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 314315004345 active site 314315004346 dimer interface [polypeptide binding]; other site 314315004347 motif 1; other site 314315004348 motif 2; other site 314315004349 motif 3; other site 314315004350 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 314315004351 anticodon binding site; other site 314315004352 primosomal protein DnaI; Reviewed; Region: PRK08939 314315004353 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 314315004354 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 314315004355 Walker A motif; other site 314315004356 ATP binding site [chemical binding]; other site 314315004357 Walker B motif; other site 314315004358 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 314315004359 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 314315004360 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 314315004361 ATP cone domain; Region: ATP-cone; pfam03477 314315004362 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 314315004363 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 314315004364 CoA-binding site [chemical binding]; other site 314315004365 ATP-binding [chemical binding]; other site 314315004366 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 314315004367 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 314315004368 DNA binding site [nucleotide binding] 314315004369 catalytic residue [active] 314315004370 H2TH interface [polypeptide binding]; other site 314315004371 putative catalytic residues [active] 314315004372 turnover-facilitating residue; other site 314315004373 intercalation triad [nucleotide binding]; other site 314315004374 8OG recognition residue [nucleotide binding]; other site 314315004375 putative reading head residues; other site 314315004376 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 314315004377 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 314315004378 DNA polymerase I; Provisional; Region: PRK05755 314315004379 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 314315004380 active site 314315004381 metal binding site 1 [ion binding]; metal-binding site 314315004382 putative 5' ssDNA interaction site; other site 314315004383 metal binding site 3; metal-binding site 314315004384 metal binding site 2 [ion binding]; metal-binding site 314315004385 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 314315004386 putative DNA binding site [nucleotide binding]; other site 314315004387 putative metal binding site [ion binding]; other site 314315004388 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 314315004389 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 314315004390 active site 314315004391 DNA binding site [nucleotide binding] 314315004392 catalytic site [active] 314315004393 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 314315004394 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 314315004395 Haemagglutinin; Region: Hemagglutinin; pfam00509 314315004396 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 314315004397 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 314315004398 SmpB-tmRNA interface; other site 314315004399 ribonuclease R; Region: RNase_R; TIGR02063 314315004400 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 314315004401 RNB domain; Region: RNB; pfam00773 314315004402 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 314315004403 RNA binding site [nucleotide binding]; other site 314315004404 Esterase/lipase [General function prediction only]; Region: COG1647 314315004405 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 314315004406 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 314315004407 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 314315004408 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 314315004409 Cl- selectivity filter; other site 314315004410 Cl- binding residues [ion binding]; other site 314315004411 pore gating glutamate residue; other site 314315004412 dimer interface [polypeptide binding]; other site 314315004413 H+/Cl- coupling transport residue; other site 314315004414 TrkA-C domain; Region: TrkA_C; pfam02080 314315004415 inner membrane transporter YjeM; Provisional; Region: PRK15238 314315004416 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 314315004417 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315004418 ABC transporter signature motif; other site 314315004419 Walker B; other site 314315004420 D-loop; other site 314315004421 H-loop/switch region; other site 314315004422 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 314315004423 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315004424 Walker A/P-loop; other site 314315004425 ATP binding site [chemical binding]; other site 314315004426 Predicted transcriptional regulators [Transcription]; Region: COG1725 314315004427 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 314315004428 DNA-binding site [nucleotide binding]; DNA binding site 314315004429 esterase; Provisional; Region: PRK10566 314315004430 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 314315004431 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 314315004432 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 314315004433 active site 314315004434 HIGH motif; other site 314315004435 KMSK motif region; other site 314315004436 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 314315004437 tRNA binding surface [nucleotide binding]; other site 314315004438 anticodon binding site; other site 314315004439 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 314315004440 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 314315004441 Walker A/P-loop; other site 314315004442 ATP binding site [chemical binding]; other site 314315004443 Q-loop/lid; other site 314315004444 ABC transporter signature motif; other site 314315004445 Walker B; other site 314315004446 D-loop; other site 314315004447 H-loop/switch region; other site 314315004448 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 314315004449 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 314315004450 FtsX-like permease family; Region: FtsX; pfam02687 314315004451 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 314315004452 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 314315004453 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 314315004454 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 314315004455 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 314315004456 active site 314315004457 motif I; other site 314315004458 motif II; other site 314315004459 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 314315004460 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 314315004461 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 314315004462 metal-binding site [ion binding] 314315004463 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 314315004464 Soluble P-type ATPase [General function prediction only]; Region: COG4087 314315004465 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 314315004466 metal-binding site [ion binding] 314315004467 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 314315004468 putative substrate binding site [chemical binding]; other site 314315004469 putative ATP binding site [chemical binding]; other site 314315004470 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 314315004471 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 314315004472 RNA binding surface [nucleotide binding]; other site 314315004473 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 314315004474 active site 314315004475 uracil binding [chemical binding]; other site 314315004476 stage V sporulation protein B; Region: spore_V_B; TIGR02900 314315004477 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 314315004478 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 314315004479 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 314315004480 putative substrate translocation pore; other site 314315004481 Predicted transcriptional regulators [Transcription]; Region: COG1733 314315004482 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 314315004483 dimerization interface [polypeptide binding]; other site 314315004484 putative Zn2+ binding site [ion binding]; other site 314315004485 putative DNA binding site [nucleotide binding]; other site 314315004486 putative transport protein YifK; Provisional; Region: PRK10746 314315004487 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 314315004488 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 314315004489 HIGH motif; other site 314315004490 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 314315004491 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 314315004492 active site 314315004493 KMSKS motif; other site 314315004494 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 314315004495 tRNA binding surface [nucleotide binding]; other site 314315004496 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 314315004497 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314315004498 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314315004499 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314315004500 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314315004501 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314315004502 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 314315004503 active site 314315004504 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 314315004505 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 314315004506 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 314315004507 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 314315004508 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 314315004509 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 314315004510 active site 314315004511 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 314315004512 ATP-NAD kinase; Region: NAD_kinase; pfam01513 314315004513 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 314315004514 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 314315004515 synthetase active site [active] 314315004516 NTP binding site [chemical binding]; other site 314315004517 metal binding site [ion binding]; metal-binding site 314315004518 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 314315004519 putative active site [active] 314315004520 putative metal binding residues [ion binding]; other site 314315004521 signature motif; other site 314315004522 putative triphosphate binding site [ion binding]; other site 314315004523 Thioredoxin; Region: Thioredoxin_5; pfam13743 314315004524 Competence protein CoiA-like family; Region: CoiA; cl11541 314315004525 adaptor protein; Provisional; Region: PRK02315 314315004526 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 314315004527 ArsC family; Region: ArsC; pfam03960 314315004528 putative catalytic residues [active] 314315004529 thiol/disulfide switch; other site 314315004530 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 314315004531 Protein of unknown function (DUF975); Region: DUF975; cl10504 314315004532 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 314315004533 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 314315004534 Walker A/P-loop; other site 314315004535 ATP binding site [chemical binding]; other site 314315004536 Q-loop/lid; other site 314315004537 ABC transporter signature motif; other site 314315004538 Walker B; other site 314315004539 D-loop; other site 314315004540 H-loop/switch region; other site 314315004541 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314315004542 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 314315004543 active site 314315004544 phosphorylation site [posttranslational modification] 314315004545 intermolecular recognition site; other site 314315004546 dimerization interface [polypeptide binding]; other site 314315004547 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 314315004548 DNA binding site [nucleotide binding] 314315004549 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314315004550 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 314315004551 dimer interface [polypeptide binding]; other site 314315004552 phosphorylation site [posttranslational modification] 314315004553 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 314315004554 ATP binding site [chemical binding]; other site 314315004555 Mg2+ binding site [ion binding]; other site 314315004556 G-X-G motif; other site 314315004557 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 314315004558 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 314315004559 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 314315004560 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 314315004561 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 314315004562 ATP cone domain; Region: ATP-cone; pfam03477 314315004563 Class III ribonucleotide reductase; Region: RNR_III; cd01675 314315004564 effector binding site; other site 314315004565 active site 314315004566 Zn binding site [ion binding]; other site 314315004567 glycine loop; other site 314315004568 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 314315004569 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 314315004570 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 314315004571 motif II; other site 314315004572 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 314315004573 Penicillinase repressor; Region: Pencillinase_R; pfam03965 314315004574 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 314315004575 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 314315004576 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 314315004577 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 314315004578 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 314315004579 dimerization domain swap beta strand [polypeptide binding]; other site 314315004580 regulatory protein interface [polypeptide binding]; other site 314315004581 active site 314315004582 regulatory phosphorylation site [posttranslational modification]; other site 314315004583 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 314315004584 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 314315004585 Walker A motif; other site 314315004586 ATP binding site [chemical binding]; other site 314315004587 Walker B motif; other site 314315004588 arginine finger; other site 314315004589 UvrB/uvrC motif; Region: UVR; pfam02151 314315004590 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 314315004591 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 314315004592 Walker A motif; other site 314315004593 ATP binding site [chemical binding]; other site 314315004594 Walker B motif; other site 314315004595 arginine finger; other site 314315004596 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 314315004597 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 314315004598 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 314315004599 trimer interface [polypeptide binding]; other site 314315004600 putative Zn binding site [ion binding]; other site 314315004601 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 314315004602 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 314315004603 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 314315004604 G1 box; other site 314315004605 putative GEF interaction site [polypeptide binding]; other site 314315004606 GTP/Mg2+ binding site [chemical binding]; other site 314315004607 Switch I region; other site 314315004608 G2 box; other site 314315004609 G3 box; other site 314315004610 Switch II region; other site 314315004611 G4 box; other site 314315004612 G5 box; other site 314315004613 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 314315004614 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 314315004615 Domain of unknown function DUF21; Region: DUF21; pfam01595 314315004616 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 314315004617 Transporter associated domain; Region: CorC_HlyC; smart01091 314315004618 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 314315004619 Domain of unknown function DUF20; Region: UPF0118; pfam01594 314315004620 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 314315004621 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314315004622 Coenzyme A binding pocket [chemical binding]; other site 314315004623 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 314315004624 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 314315004625 Ligand binding site; other site 314315004626 metal-binding site 314315004627 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 314315004628 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 314315004629 Ligand binding site; other site 314315004630 metal-binding site 314315004631 hypothetical protein; Provisional; Region: PRK13662 314315004632 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 314315004633 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 314315004634 minor groove reading motif; other site 314315004635 helix-hairpin-helix signature motif; other site 314315004636 substrate binding pocket [chemical binding]; other site 314315004637 active site 314315004638 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 314315004639 DNA binding and oxoG recognition site [nucleotide binding] 314315004640 recombination regulator RecX; Provisional; Region: recX; PRK14135 314315004641 TRAM domain; Region: TRAM; cl01282 314315004642 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 314315004643 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 314315004644 S-adenosylmethionine binding site [chemical binding]; other site 314315004645 Protein of unknown function (DUF805); Region: DUF805; pfam05656 314315004646 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 314315004647 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 314315004648 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 314315004649 dimer interface [polypeptide binding]; other site 314315004650 active site 314315004651 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 314315004652 homodimer interface [polypeptide binding]; other site 314315004653 catalytic residues [active] 314315004654 NAD binding site [chemical binding]; other site 314315004655 substrate binding pocket [chemical binding]; other site 314315004656 flexible flap; other site 314315004657 putative acyltransferase; Provisional; Region: PRK05790 314315004658 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 314315004659 dimer interface [polypeptide binding]; other site 314315004660 active site 314315004661 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 314315004662 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 314315004663 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 314315004664 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 314315004665 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 314315004666 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 314315004667 Double zinc ribbon; Region: DZR; pfam12773 314315004668 Protein of unknown function (DUF975); Region: DUF975; cl10504 314315004669 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 314315004670 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 314315004671 NAD binding site [chemical binding]; other site 314315004672 substrate binding site [chemical binding]; other site 314315004673 homodimer interface [polypeptide binding]; other site 314315004674 active site 314315004675 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 314315004676 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 314315004677 Walker A/P-loop; other site 314315004678 ATP binding site [chemical binding]; other site 314315004679 Q-loop/lid; other site 314315004680 ABC transporter signature motif; other site 314315004681 Walker B; other site 314315004682 D-loop; other site 314315004683 H-loop/switch region; other site 314315004684 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 314315004685 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 314315004686 substrate binding pocket [chemical binding]; other site 314315004687 membrane-bound complex binding site; other site 314315004688 hinge residues; other site 314315004689 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 314315004690 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 314315004691 dimer interface [polypeptide binding]; other site 314315004692 conserved gate region; other site 314315004693 putative PBP binding loops; other site 314315004694 ABC-ATPase subunit interface; other site 314315004695 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 314315004696 active site 314315004697 catalytic residues [active] 314315004698 metal binding site [ion binding]; metal-binding site 314315004699 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 314315004700 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 314315004701 active site 314315004702 phosphorylation site [posttranslational modification] 314315004703 intermolecular recognition site; other site 314315004704 LytTr DNA-binding domain; Region: LytTR; smart00850 314315004705 Accessory gene regulator B; Region: AgrB; pfam04647 314315004706 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 314315004707 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 314315004708 active site 314315004709 tetramer interface; other site 314315004710 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 314315004711 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 314315004712 DNA binding residues [nucleotide binding] 314315004713 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 314315004714 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 314315004715 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 314315004716 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 314315004717 active site 314315004718 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 314315004719 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314315004720 putative ADP-binding pocket [chemical binding]; other site 314315004721 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 314315004722 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 314315004723 Ligand binding site; other site 314315004724 metal-binding site 314315004725 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 314315004726 Bacterial sugar transferase; Region: Bac_transf; pfam02397 314315004727 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 314315004728 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 314315004729 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 314315004730 Chain length determinant protein; Region: Wzz; cl15801 314315004731 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 314315004732 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 314315004733 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 314315004734 active site 314315004735 flavodoxin; Validated; Region: PRK07308 314315004736 Predicted membrane protein [Function unknown]; Region: COG2246 314315004737 GtrA-like protein; Region: GtrA; pfam04138 314315004738 Predicted membrane protein [Function unknown]; Region: COG2246 314315004739 GtrA-like protein; Region: GtrA; pfam04138 314315004740 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 314315004741 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 314315004742 Ligand binding site; other site 314315004743 Putative Catalytic site; other site 314315004744 DXD motif; other site 314315004745 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 314315004746 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 314315004747 active site 314315004748 homodimer interface [polypeptide binding]; other site 314315004749 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 314315004750 WHG domain; Region: WHG; pfam13305 314315004751 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 314315004752 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 314315004753 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 314315004754 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 314315004755 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 314315004756 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 314315004757 intersubunit interface [polypeptide binding]; other site 314315004758 active site 314315004759 zinc binding site [ion binding]; other site 314315004760 Na+ binding site [ion binding]; other site 314315004761 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 314315004762 putative substrate translocation pore; other site 314315004763 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 314315004764 HTH domain; Region: HTH_11; pfam08279 314315004765 3H domain; Region: 3H; pfam02829 314315004766 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 314315004767 beta-galactosidase; Region: BGL; TIGR03356 314315004768 Domain of unknown function (DUF3284); Region: DUF3284; pfam11687 314315004769 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 314315004770 active site 314315004771 methionine cluster; other site 314315004772 phosphorylation site [posttranslational modification] 314315004773 metal binding site [ion binding]; metal-binding site 314315004774 DEAD-like helicases superfamily; Region: DEXDc; smart00487 314315004775 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 314315004776 ATP binding site [chemical binding]; other site 314315004777 putative Mg++ binding site [ion binding]; other site 314315004778 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 314315004779 nucleotide binding region [chemical binding]; other site 314315004780 ATP-binding site [chemical binding]; other site 314315004781 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 314315004782 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 314315004783 Protein of unknown function (DUF1093); Region: DUF1093; pfam06486 314315004784 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_2; cd06419 314315004785 active site 314315004786 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 314315004787 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 314315004788 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 314315004789 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 314315004790 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 314315004791 TRAM domain; Region: TRAM; pfam01938 314315004792 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 314315004793 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 314315004794 S-adenosylmethionine binding site [chemical binding]; other site 314315004795 putative lipid kinase; Reviewed; Region: PRK13055 314315004796 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 314315004797 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 314315004798 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 314315004799 GatB domain; Region: GatB_Yqey; smart00845 314315004800 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 314315004801 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 314315004802 Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit [Translation, ribosomal structure and biogenesis]; Region: GatC; COG0721 314315004803 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 314315004804 putative dimer interface [polypeptide binding]; other site 314315004805 CamS sex pheromone cAM373 precursor; Region: CamS; pfam07537 314315004806 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 314315004807 putative dimer interface [polypeptide binding]; other site 314315004808 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 314315004809 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 314315004810 nucleotide binding pocket [chemical binding]; other site 314315004811 K-X-D-G motif; other site 314315004812 catalytic site [active] 314315004813 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 314315004814 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 314315004815 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 314315004816 Dimer interface [polypeptide binding]; other site 314315004817 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 314315004818 Part of AAA domain; Region: AAA_19; pfam13245 314315004819 Family description; Region: UvrD_C_2; pfam13538 314315004820 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 314315004821 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 314315004822 active site 314315004823 motif I; other site 314315004824 motif II; other site 314315004825 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 314315004826 Transcriptional regulators [Transcription]; Region: PurR; COG1609 314315004827 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 314315004828 DNA binding site [nucleotide binding] 314315004829 domain linker motif; other site 314315004830 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 314315004831 putative dimerization interface [polypeptide binding]; other site 314315004832 putative ligand binding site [chemical binding]; other site 314315004833 adenylosuccinate lyase; Provisional; Region: PRK07492 314315004834 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 314315004835 tetramer interface [polypeptide binding]; other site 314315004836 active site 314315004837 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 314315004838 ATP-grasp domain; Region: ATP-grasp_4; cl17255 314315004839 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314315004840 active site 314315004841 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 314315004842 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 314315004843 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 314315004844 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314315004845 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 314315004846 Coenzyme A binding pocket [chemical binding]; other site 314315004847 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 314315004848 DNA-binding site [nucleotide binding]; DNA binding site 314315004849 RNA-binding motif; other site 314315004850 Predicted membrane protein [Function unknown]; Region: COG4684 314315004851 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 314315004852 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314315004853 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 314315004854 Coenzyme A binding pocket [chemical binding]; other site 314315004855 SprT homologues; Region: SprT; cl01182 314315004856 hypothetical protein; Provisional; Region: PRK04351 314315004857 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 314315004858 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 314315004859 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 314315004860 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 314315004861 RNA binding site [nucleotide binding]; other site 314315004862 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 314315004863 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 314315004864 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 314315004865 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 314315004866 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 314315004867 motif II; other site 314315004868 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 314315004869 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 314315004870 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 314315004871 homodimer interface [polypeptide binding]; other site 314315004872 NAD binding pocket [chemical binding]; other site 314315004873 ATP binding pocket [chemical binding]; other site 314315004874 Mg binding site [ion binding]; other site 314315004875 active-site loop [active] 314315004876 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 314315004877 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 314315004878 active site 314315004879 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 314315004880 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 314315004881 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 314315004882 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 314315004883 active site 314315004884 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314315004885 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 314315004886 glycerol-3-phosphate cytidylyltransferase; Region: G3P_Cytidylyltransferase; cd02171 314315004887 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 314315004888 active site 314315004889 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 314315004890 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 314315004891 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 314315004892 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 314315004893 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 314315004894 conserved hypothetical integral membrane protein; Region: TIGR03766 314315004895 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 314315004896 amidase catalytic site [active] 314315004897 Zn binding residues [ion binding]; other site 314315004898 substrate binding site [chemical binding]; other site 314315004899 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 314315004900 Sulfatase; Region: Sulfatase; cl17466 314315004901 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 314315004902 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 314315004903 DNA-binding site [nucleotide binding]; DNA binding site 314315004904 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 314315004905 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 314315004906 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 314315004907 active site 314315004908 dimer interface [polypeptide binding]; other site 314315004909 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 314315004910 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 314315004911 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 314315004912 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 314315004913 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the...; Region: Sortase_A_1; cd06165 314315004914 active site 314315004915 catalytic site [active] 314315004916 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 314315004917 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 314315004918 putative substrate translocation pore; other site 314315004919 POT family; Region: PTR2; cl17359 314315004920 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 314315004921 ADP-ribose binding site [chemical binding]; other site 314315004922 dimer interface [polypeptide binding]; other site 314315004923 active site 314315004924 nudix motif; other site 314315004925 metal binding site [ion binding]; metal-binding site 314315004926 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 314315004927 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 314315004928 dimer interface [polypeptide binding]; other site 314315004929 putative anticodon binding site; other site 314315004930 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 314315004931 motif 1; other site 314315004932 active site 314315004933 motif 2; other site 314315004934 motif 3; other site 314315004935 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 314315004936 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 314315004937 FMN binding site [chemical binding]; other site 314315004938 active site 314315004939 catalytic residues [active] 314315004940 substrate binding site [chemical binding]; other site 314315004941 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 314315004942 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 314315004943 dimerization interface [polypeptide binding]; other site 314315004944 domain crossover interface; other site 314315004945 redox-dependent activation switch; other site 314315004946 FtsH Extracellular; Region: FtsH_ext; pfam06480 314315004947 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 314315004948 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 314315004949 Walker A motif; other site 314315004950 ATP binding site [chemical binding]; other site 314315004951 Walker B motif; other site 314315004952 arginine finger; other site 314315004953 Peptidase family M41; Region: Peptidase_M41; pfam01434 314315004954 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 314315004955 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314315004956 active site 314315004957 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 314315004958 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 314315004959 Ligand Binding Site [chemical binding]; other site 314315004960 TilS substrate C-terminal domain; Region: TilS_C; smart00977 314315004961 hypothetical protein; Provisional; Region: PRK08582 314315004962 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 314315004963 RNA binding site [nucleotide binding]; other site 314315004964 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 314315004965 RNA binding surface [nucleotide binding]; other site 314315004966 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 314315004967 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 314315004968 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 314315004969 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 314315004970 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 314315004971 ATP binding site [chemical binding]; other site 314315004972 putative Mg++ binding site [ion binding]; other site 314315004973 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 314315004974 nucleotide binding region [chemical binding]; other site 314315004975 ATP-binding site [chemical binding]; other site 314315004976 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 314315004977 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 314315004978 putative active site [active] 314315004979 catalytic residue [active] 314315004980 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 314315004981 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 314315004982 tetramer (dimer of dimers) interface [polypeptide binding]; other site 314315004983 NAD binding site [chemical binding]; other site 314315004984 dimer interface [polypeptide binding]; other site 314315004985 substrate binding site [chemical binding]; other site 314315004986 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 314315004987 MarR family; Region: MarR_2; pfam12802 314315004988 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 314315004989 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 314315004990 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 314315004991 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 314315004992 FOG: CBS domain [General function prediction only]; Region: COG0517 314315004993 QueT transporter; Region: QueT; pfam06177 314315004994 PemK-like protein; Region: PemK; pfam02452 314315004995 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 314315004996 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 314315004997 active site 314315004998 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 314315004999 dimer interface [polypeptide binding]; other site 314315005000 substrate binding site [chemical binding]; other site 314315005001 catalytic residues [active] 314315005002 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 314315005003 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 314315005004 DEAD-like helicases superfamily; Region: DEXDc; smart00487 314315005005 ATP binding site [chemical binding]; other site 314315005006 Mg++ binding site [ion binding]; other site 314315005007 motif III; other site 314315005008 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 314315005009 nucleotide binding region [chemical binding]; other site 314315005010 ATP-binding site [chemical binding]; other site 314315005011 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 314315005012 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 314315005013 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314315005014 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 314315005015 Protein of unknown function (DUF3114); Region: DUF3114; pfam11311 314315005016 heat shock protein HtpX; Provisional; Region: PRK04897 314315005017 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 314315005018 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 314315005019 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 314315005020 Major Facilitator Superfamily; Region: MFS_1; pfam07690 314315005021 putative substrate translocation pore; other site 314315005022 Protein of unknown function (DUF1211); Region: DUF1211; pfam06736 314315005023 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 314315005024 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 314315005025 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 314315005026 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 314315005027 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 314315005028 hinge; other site 314315005029 active site 314315005030 CTP synthetase; Validated; Region: pyrG; PRK05380 314315005031 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 314315005032 Catalytic site [active] 314315005033 active site 314315005034 UTP binding site [chemical binding]; other site 314315005035 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 314315005036 active site 314315005037 putative oxyanion hole; other site 314315005038 catalytic triad [active] 314315005039 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 314315005040 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 314315005041 nucleotide binding site [chemical binding]; other site 314315005042 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 314315005043 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 314315005044 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 314315005045 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 314315005046 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314315005047 Zn2+ binding site [ion binding]; other site 314315005048 Mg2+ binding site [ion binding]; other site 314315005049 sugar phosphate phosphatase; Provisional; Region: PRK10513 314315005050 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 314315005051 active site 314315005052 motif I; other site 314315005053 motif II; other site 314315005054 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 314315005055 Uncharacterized conserved protein [Function unknown]; Region: COG1434 314315005056 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 314315005057 putative active site [active] 314315005058 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 314315005059 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 314315005060 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 314315005061 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 314315005062 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 314315005063 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 314315005064 putative active site [active] 314315005065 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 314315005066 Class I aldolases; Region: Aldolase_Class_I; cl17187 314315005067 catalytic residue [active] 314315005068 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 314315005069 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 314315005070 putative active site cavity [active] 314315005071 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 314315005072 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 314315005073 Na binding site [ion binding]; other site 314315005074 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 314315005075 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 314315005076 nucleotide binding site [chemical binding]; other site 314315005077 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 314315005078 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 314315005079 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 314315005080 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 314315005081 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 314315005082 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314315005083 active site 314315005084 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 314315005085 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 314315005086 Substrate binding site; other site 314315005087 Mg++ binding site; other site 314315005088 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 314315005089 active site 314315005090 substrate binding site [chemical binding]; other site 314315005091 CoA binding site [chemical binding]; other site 314315005092 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 314315005093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 314315005094 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 314315005095 pur operon repressor; Provisional; Region: PRK09213 314315005096 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 314315005097 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314315005098 active site 314315005099 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 314315005100 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 314315005101 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 314315005102 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 314315005103 MarR family; Region: MarR_2; pfam12802 314315005104 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 314315005105 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 314315005106 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 314315005107 S-adenosylmethionine binding site [chemical binding]; other site 314315005108 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 314315005109 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 314315005110 putative active site [active] 314315005111 putative metal binding site [ion binding]; other site 314315005112 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 314315005113 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 314315005114 active site 314315005115 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 314315005116 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 314315005117 active site 314315005118 HIGH motif; other site 314315005119 KMSKS motif; other site 314315005120 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 314315005121 tRNA binding surface [nucleotide binding]; other site 314315005122 anticodon binding site; other site 314315005123 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 314315005124 dimer interface [polypeptide binding]; other site 314315005125 putative tRNA-binding site [nucleotide binding]; other site 314315005126 Protein of unknown function DUF72; Region: DUF72; pfam01904 314315005127 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 314315005128 putative active site [active] 314315005129 nucleotide binding site [chemical binding]; other site 314315005130 nudix motif; other site 314315005131 putative metal binding site [ion binding]; other site 314315005132 Chorismate mutase type II; Region: CM_2; cl00693 314315005133 RibD C-terminal domain; Region: RibD_C; cl17279 314315005134 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 314315005135 phosphonoacetaldehyde hydrolase; Region: phosphonatase; TIGR01422 314315005136 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 314315005137 motif II; other site 314315005138 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 314315005139 core dimer interface [polypeptide binding]; other site 314315005140 peripheral dimer interface [polypeptide binding]; other site 314315005141 L10 interface [polypeptide binding]; other site 314315005142 L11 interface [polypeptide binding]; other site 314315005143 putative EF-Tu interaction site [polypeptide binding]; other site 314315005144 putative EF-G interaction site [polypeptide binding]; other site 314315005145 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 314315005146 23S rRNA interface [nucleotide binding]; other site 314315005147 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 314315005148 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 314315005149 propionate/acetate kinase; Provisional; Region: PRK12379 314315005150 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 314315005151 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 314315005152 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 314315005153 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 314315005154 active site 314315005155 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 314315005156 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 314315005157 mRNA/rRNA interface [nucleotide binding]; other site 314315005158 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 314315005159 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 314315005160 23S rRNA interface [nucleotide binding]; other site 314315005161 L7/L12 interface [polypeptide binding]; other site 314315005162 putative thiostrepton binding site; other site 314315005163 L25 interface [polypeptide binding]; other site 314315005164 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 314315005165 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 314315005166 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 314315005167 putative homodimer interface [polypeptide binding]; other site 314315005168 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 314315005169 heterodimer interface [polypeptide binding]; other site 314315005170 homodimer interface [polypeptide binding]; other site 314315005171 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 314315005172 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 314315005173 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 314315005174 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314315005175 YacP-like NYN domain; Region: NYN_YacP; pfam05991 314315005176 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 314315005177 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 314315005178 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 314315005179 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 314315005180 active site 314315005181 metal binding site [ion binding]; metal-binding site 314315005182 dimerization interface [polypeptide binding]; other site 314315005183 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 314315005184 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 314315005185 active site 314315005186 HIGH motif; other site 314315005187 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 314315005188 KMSKS motif; other site 314315005189 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 314315005190 tRNA binding surface [nucleotide binding]; other site 314315005191 anticodon binding site; other site 314315005192 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 314315005193 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 314315005194 putative active site [active] 314315005195 DNA repair protein RadA; Provisional; Region: PRK11823 314315005196 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 314315005197 Walker A motif/ATP binding site; other site 314315005198 ATP binding site [chemical binding]; other site 314315005199 Walker B motif; other site 314315005200 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 314315005201 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 314315005202 trimer interface [polypeptide binding]; other site 314315005203 active site 314315005204 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 314315005205 tetramer (dimer of dimers) interface [polypeptide binding]; other site 314315005206 active site 314315005207 dimer interface [polypeptide binding]; other site 314315005208 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 314315005209 trimer interface [polypeptide binding]; other site 314315005210 active site 314315005211 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cl00298 314315005212 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 314315005213 trimer interface [polypeptide binding]; other site 314315005214 active site 314315005215 G bulge; other site 314315005216 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 314315005217 dipeptidase, putative; Region: dipeptidaselike; TIGR01887 314315005218 active site 314315005219 metal binding site [ion binding]; metal-binding site 314315005220 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 314315005221 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 314315005222 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 314315005223 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 314315005224 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 314315005225 DNA-binding site [nucleotide binding]; DNA binding site 314315005226 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 314315005227 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 314315005228 active site 314315005229 dimer interface [polypeptide binding]; other site 314315005230 catalytic nucleophile [active] 314315005231 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 314315005232 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 314315005233 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 314315005234 dimer interface [polypeptide binding]; other site 314315005235 conserved gate region; other site 314315005236 putative PBP binding loops; other site 314315005237 ABC-ATPase subunit interface; other site 314315005238 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 314315005239 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 314315005240 Walker A/P-loop; other site 314315005241 ATP binding site [chemical binding]; other site 314315005242 Q-loop/lid; other site 314315005243 ABC transporter signature motif; other site 314315005244 Walker B; other site 314315005245 D-loop; other site 314315005246 H-loop/switch region; other site 314315005247 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 314315005248 inner membrane transporter YjeM; Provisional; Region: PRK15238 314315005249 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 314315005250 MgtC family; Region: MgtC; pfam02308 314315005251 manganese transport protein MntH; Reviewed; Region: PRK00701 314315005252 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 314315005253 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; cl01382 314315005254 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 314315005255 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 314315005256 NAD binding site [chemical binding]; other site 314315005257 substrate binding site [chemical binding]; other site 314315005258 catalytic Zn binding site [ion binding]; other site 314315005259 tetramer interface [polypeptide binding]; other site 314315005260 structural Zn binding site [ion binding]; other site 314315005261 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 314315005262 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 314315005263 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 314315005264 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 314315005265 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 314315005266 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 314315005267 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 314315005268 motif II; other site 314315005269 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 314315005270 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 314315005271 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 314315005272 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 314315005273 Double zinc ribbon; Region: DZR; pfam12773 314315005274 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 314315005275 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 314315005276 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 314315005277 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 314315005278 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 314315005279 dimer interface [polypeptide binding]; other site 314315005280 FMN binding site [chemical binding]; other site 314315005281 NADPH bind site [chemical binding]; other site 314315005282 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 314315005283 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 314315005284 potential catalytic triad [active] 314315005285 conserved cys residue [active] 314315005286 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 314315005287 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314315005288 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 314315005289 non-specific DNA binding site [nucleotide binding]; other site 314315005290 salt bridge; other site 314315005291 sequence-specific DNA binding site [nucleotide binding]; other site 314315005292 Family of unknown function (DUF572); Region: DUF572; pfam04502 314315005293 AAA domain; Region: AAA_21; pfam13304 314315005294 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 314315005295 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 314315005296 23S rRNA interface [nucleotide binding]; other site 314315005297 L3 interface [polypeptide binding]; other site 314315005298 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 314315005299 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 314315005300 dimerization interface 3.5A [polypeptide binding]; other site 314315005301 active site 314315005302 MarR family; Region: MarR; pfam01047 314315005303 WxL domain surface cell wall-binding; Region: WxL; pfam13731 314315005304 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 314315005305 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 314315005306 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 314315005307 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 314315005308 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 314315005309 WxL domain surface cell wall-binding; Region: WxL; pfam13731 314315005310 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 314315005311 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 314315005312 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 314315005313 Walker A/P-loop; other site 314315005314 ATP binding site [chemical binding]; other site 314315005315 Q-loop/lid; other site 314315005316 ABC transporter signature motif; other site 314315005317 Walker B; other site 314315005318 D-loop; other site 314315005319 H-loop/switch region; other site 314315005320 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 314315005321 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 314315005322 Walker A/P-loop; other site 314315005323 ATP binding site [chemical binding]; other site 314315005324 Q-loop/lid; other site 314315005325 ABC transporter signature motif; other site 314315005326 Walker B; other site 314315005327 D-loop; other site 314315005328 H-loop/switch region; other site 314315005329 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 314315005330 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 314315005331 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 314315005332 alphaNTD homodimer interface [polypeptide binding]; other site 314315005333 alphaNTD - beta interaction site [polypeptide binding]; other site 314315005334 alphaNTD - beta' interaction site [polypeptide binding]; other site 314315005335 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 314315005336 30S ribosomal protein S11; Validated; Region: PRK05309 314315005337 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 314315005338 30S ribosomal protein S13; Region: bact_S13; TIGR03631 314315005339 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 314315005340 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 314315005341 rRNA binding site [nucleotide binding]; other site 314315005342 predicted 30S ribosome binding site; other site 314315005343 adenylate kinase; Reviewed; Region: adk; PRK00279 314315005344 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 314315005345 AMP-binding site [chemical binding]; other site 314315005346 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 314315005347 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 314315005348 SecY translocase; Region: SecY; pfam00344 314315005349 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 314315005350 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 314315005351 23S rRNA binding site [nucleotide binding]; other site 314315005352 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 314315005353 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 314315005354 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 314315005355 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 314315005356 5S rRNA interface [nucleotide binding]; other site 314315005357 L27 interface [polypeptide binding]; other site 314315005358 23S rRNA interface [nucleotide binding]; other site 314315005359 L5 interface [polypeptide binding]; other site 314315005360 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 314315005361 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 314315005362 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 314315005363 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 314315005364 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 314315005365 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 314315005366 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 314315005367 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 314315005368 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 314315005369 RNA binding site [nucleotide binding]; other site 314315005370 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 314315005371 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 314315005372 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 314315005373 23S rRNA interface [nucleotide binding]; other site 314315005374 putative translocon interaction site; other site 314315005375 signal recognition particle (SRP54) interaction site; other site 314315005376 L23 interface [polypeptide binding]; other site 314315005377 trigger factor interaction site; other site 314315005378 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 314315005379 23S rRNA interface [nucleotide binding]; other site 314315005380 5S rRNA interface [nucleotide binding]; other site 314315005381 putative antibiotic binding site [chemical binding]; other site 314315005382 L25 interface [polypeptide binding]; other site 314315005383 L27 interface [polypeptide binding]; other site 314315005384 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 314315005385 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 314315005386 G-X-X-G motif; other site 314315005387 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 314315005388 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 314315005389 putative translocon binding site; other site 314315005390 protein-rRNA interface [nucleotide binding]; other site 314315005391 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 314315005392 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 314315005393 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 314315005394 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 314315005395 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 314315005396 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 314315005397 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 314315005398 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 314315005399 Isochorismatase family; Region: Isochorismatase; pfam00857 314315005400 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 314315005401 catalytic triad [active] 314315005402 conserved cis-peptide bond; other site 314315005403 elongation factor G; Reviewed; Region: PRK12739 314315005404 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 314315005405 G1 box; other site 314315005406 putative GEF interaction site [polypeptide binding]; other site 314315005407 GTP/Mg2+ binding site [chemical binding]; other site 314315005408 Switch I region; other site 314315005409 G2 box; other site 314315005410 G3 box; other site 314315005411 Switch II region; other site 314315005412 G4 box; other site 314315005413 G5 box; other site 314315005414 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 314315005415 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 314315005416 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 314315005417 30S ribosomal protein S7; Validated; Region: PRK05302 314315005418 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 314315005419 S17 interaction site [polypeptide binding]; other site 314315005420 S8 interaction site; other site 314315005421 16S rRNA interaction site [nucleotide binding]; other site 314315005422 streptomycin interaction site [chemical binding]; other site 314315005423 23S rRNA interaction site [nucleotide binding]; other site 314315005424 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 314315005425 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 314315005426 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 314315005427 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 314315005428 Isochorismatase family; Region: Isochorismatase; pfam00857 314315005429 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 314315005430 conserved cis-peptide bond; other site 314315005431 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 314315005432 catalytic triad [active] 314315005433 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 314315005434 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 314315005435 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 314315005436 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 314315005437 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 314315005438 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 314315005439 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 314315005440 G-loop; other site 314315005441 DNA binding site [nucleotide binding] 314315005442 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 314315005443 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 314315005444 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 314315005445 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 314315005446 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 314315005447 RPB1 interaction site [polypeptide binding]; other site 314315005448 RPB10 interaction site [polypeptide binding]; other site 314315005449 RPB11 interaction site [polypeptide binding]; other site 314315005450 RPB3 interaction site [polypeptide binding]; other site 314315005451 RPB12 interaction site [polypeptide binding]; other site 314315005452 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 314315005453 PBP superfamily domain; Region: PBP_like_2; cl17296 314315005454 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 314315005455 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 314315005456 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 314315005457 Clp amino terminal domain; Region: Clp_N; pfam02861 314315005458 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 314315005459 Walker A motif; other site 314315005460 ATP binding site [chemical binding]; other site 314315005461 Walker B motif; other site 314315005462 arginine finger; other site 314315005463 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 314315005464 Walker A motif; other site 314315005465 ATP binding site [chemical binding]; other site 314315005466 Walker B motif; other site 314315005467 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 314315005468 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 314315005469 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 314315005470 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 314315005471 ligand binding site [chemical binding]; other site 314315005472 flexible hinge region; other site 314315005473 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 314315005474 putative switch regulator; other site 314315005475 non-specific DNA interactions [nucleotide binding]; other site 314315005476 DNA binding site [nucleotide binding] 314315005477 sequence specific DNA binding site [nucleotide binding]; other site 314315005478 putative cAMP binding site [chemical binding]; other site 314315005479 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 314315005480 dinuclear metal binding motif [ion binding]; other site 314315005481 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 314315005482 metal-binding site [ion binding] 314315005483 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 314315005484 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 314315005485 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 314315005486 motif II; other site 314315005487 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 314315005488 Major Facilitator Superfamily; Region: MFS_1; pfam07690 314315005489 putative substrate translocation pore; other site 314315005490 Predicted integral membrane protein [Function unknown]; Region: COG5617 314315005491 AtlA is an autolysin found in Gram-positive lactic acid bacteria that degrades bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues. This family includes the AtlA and Aml...; Region: GH25_AtlA-like; cd06522 314315005492 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 314315005493 active site 314315005494 transcriptional repressor RbsR; Provisional; Region: PRK10423 314315005495 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 314315005496 DNA binding site [nucleotide binding] 314315005497 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 314315005498 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 314315005499 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 314315005500 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 314315005501 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 314315005502 Ca binding site [ion binding]; other site 314315005503 active site 314315005504 catalytic site [active] 314315005505 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 314315005506 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 314315005507 active site turn [active] 314315005508 phosphorylation site [posttranslational modification] 314315005509 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 314315005510 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 314315005511 HPr interaction site; other site 314315005512 glycerol kinase (GK) interaction site [polypeptide binding]; other site 314315005513 active site 314315005514 phosphorylation site [posttranslational modification] 314315005515 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 314315005516 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 314315005517 substrate binding [chemical binding]; other site 314315005518 active site 314315005519 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 314315005520 Transcriptional regulators [Transcription]; Region: PurR; COG1609 314315005521 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 314315005522 DNA binding site [nucleotide binding] 314315005523 domain linker motif; other site 314315005524 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 314315005525 dimerization interface [polypeptide binding]; other site 314315005526 ligand binding site [chemical binding]; other site 314315005527 sodium binding site [ion binding]; other site 314315005528 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 314315005529 Melibiase; Region: Melibiase; pfam02065 314315005530 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 314315005531 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 314315005532 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 314315005533 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 314315005534 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 314315005535 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 314315005536 DNA binding residues [nucleotide binding] 314315005537 putative dimer interface [polypeptide binding]; other site 314315005538 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 314315005539 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314315005540 NAD(P) binding site [chemical binding]; other site 314315005541 active site 314315005542 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 314315005543 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 314315005544 DNA-binding site [nucleotide binding]; DNA binding site 314315005545 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 314315005546 Predicted membrane protein [Function unknown]; Region: COG1511 314315005547 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 314315005548 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 314315005549 Predicted membrane protein [Function unknown]; Region: COG1511 314315005550 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 314315005551 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 314315005552 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 314315005553 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 314315005554 Walker A/P-loop; other site 314315005555 ATP binding site [chemical binding]; other site 314315005556 Q-loop/lid; other site 314315005557 ABC transporter signature motif; other site 314315005558 Walker B; other site 314315005559 D-loop; other site 314315005560 H-loop/switch region; other site 314315005561 seryl-tRNA synthetase; Provisional; Region: PRK05431 314315005562 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 314315005563 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 314315005564 dimer interface [polypeptide binding]; other site 314315005565 active site 314315005566 motif 1; other site 314315005567 motif 2; other site 314315005568 motif 3; other site 314315005569 Mga helix-turn-helix domain; Region: Mga; pfam05043 314315005570 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 314315005571 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 314315005572 Substrate-binding site [chemical binding]; other site 314315005573 Substrate specificity [chemical binding]; other site 314315005574 Mga helix-turn-helix domain; Region: Mga; pfam05043 314315005575 Fungal chitosanase of glycosyl hydrolase group 75; Region: Glyco_hydro_75; pfam07335 314315005576 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 314315005577 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 314315005578 WxL domain surface cell wall-binding; Region: WxL; pfam13731 314315005579 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 314315005580 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 314315005581 NodB motif; other site 314315005582 active site 314315005583 catalytic site [active] 314315005584 metal binding site [ion binding]; metal-binding site 314315005585 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 314315005586 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 314315005587 lysine transporter; Provisional; Region: PRK10836 314315005588 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 314315005589 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 314315005590 legume lectins; Region: lectin_L-type; cd01951 314315005591 homotetramer interaction site [polypeptide binding]; other site 314315005592 carbohydrate binding site [chemical binding]; other site 314315005593 metal binding site [ion binding]; metal-binding site 314315005594 WxL domain surface cell wall-binding; Region: WxL; pfam13731 314315005595 WxL domain surface cell wall-binding; Region: WxL; pfam13731 314315005596 Predicted transcriptional regulator [Transcription]; Region: COG1959 314315005597 Transcriptional regulator; Region: Rrf2; pfam02082 314315005598 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 314315005599 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 314315005600 Protein of unknown function (DUF3884); Region: DUF3884; pfam13024 314315005601 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 314315005602 Uncharacterized conserved protein [Function unknown]; Region: COG0398 314315005603 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 314315005604 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 314315005605 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 314315005606 PYR/PP interface [polypeptide binding]; other site 314315005607 dimer interface [polypeptide binding]; other site 314315005608 tetramer interface [polypeptide binding]; other site 314315005609 TPP binding site [chemical binding]; other site 314315005610 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 314315005611 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 314315005612 TPP-binding site [chemical binding]; other site 314315005613 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 314315005614 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 314315005615 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 314315005616 putative NAD(P) binding site [chemical binding]; other site 314315005617 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 314315005618 Protein of unknown function (DUF975); Region: DUF975; cl10504 314315005619 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 314315005620 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 314315005621 NAD(P) binding site [chemical binding]; other site 314315005622 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 314315005623 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 314315005624 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 314315005625 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 314315005626 Walker A/P-loop; other site 314315005627 ATP binding site [chemical binding]; other site 314315005628 Q-loop/lid; other site 314315005629 ABC transporter signature motif; other site 314315005630 Walker B; other site 314315005631 D-loop; other site 314315005632 H-loop/switch region; other site 314315005633 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 314315005634 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 314315005635 Walker A/P-loop; other site 314315005636 ATP binding site [chemical binding]; other site 314315005637 Q-loop/lid; other site 314315005638 ABC transporter signature motif; other site 314315005639 Walker B; other site 314315005640 D-loop; other site 314315005641 H-loop/switch region; other site 314315005642 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 314315005643 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 314315005644 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 314315005645 FtsX-like permease family; Region: FtsX; pfam02687 314315005646 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 314315005647 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 314315005648 Walker A/P-loop; other site 314315005649 ATP binding site [chemical binding]; other site 314315005650 Q-loop/lid; other site 314315005651 ABC transporter signature motif; other site 314315005652 Walker B; other site 314315005653 D-loop; other site 314315005654 H-loop/switch region; other site 314315005655 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 314315005656 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 314315005657 DNA binding site [nucleotide binding] 314315005658 active site 314315005659 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 314315005660 amphipathic channel; other site 314315005661 Asn-Pro-Ala signature motifs; other site 314315005662 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 314315005663 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 314315005664 ATP binding site [chemical binding]; other site 314315005665 putative Mg++ binding site [ion binding]; other site 314315005666 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 314315005667 nucleotide binding region [chemical binding]; other site 314315005668 ATP-binding site [chemical binding]; other site 314315005669 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 314315005670 HRDC domain; Region: HRDC; pfam00570 314315005671 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 314315005672 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 314315005673 substrate binding site [chemical binding]; other site 314315005674 Protein of unknown function (DUF1093); Region: DUF1093; pfam06486 314315005675 Isochorismatase family; Region: Isochorismatase; pfam00857 314315005676 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 314315005677 catalytic triad [active] 314315005678 conserved cis-peptide bond; other site 314315005679 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 314315005680 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 314315005681 AsnC family; Region: AsnC_trans_reg; pfam01037 314315005682 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 314315005683 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 314315005684 active site 314315005685 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 314315005686 catalytic core [active] 314315005687 L-arabinose isomerase; Provisional; Region: PRK02929 314315005688 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 314315005689 hexamer (dimer of trimers) interface [polypeptide binding]; other site 314315005690 trimer interface [polypeptide binding]; other site 314315005691 substrate binding site [chemical binding]; other site 314315005692 Mn binding site [ion binding]; other site 314315005693 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 314315005694 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 314315005695 intersubunit interface [polypeptide binding]; other site 314315005696 active site 314315005697 Zn2+ binding site [ion binding]; other site 314315005698 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 314315005699 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 314315005700 putative N- and C-terminal domain interface [polypeptide binding]; other site 314315005701 putative active site [active] 314315005702 MgATP binding site [chemical binding]; other site 314315005703 catalytic site [active] 314315005704 metal binding site [ion binding]; metal-binding site 314315005705 putative carbohydrate binding site [chemical binding]; other site 314315005706 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 314315005707 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 314315005708 putative substrate translocation pore; other site 314315005709 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 314315005710 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 314315005711 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 314315005712 DNA-binding site [nucleotide binding]; DNA binding site 314315005713 Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AraR; cd01541 314315005714 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 314315005715 putative dimerization interface [polypeptide binding]; other site 314315005716 putative ligand binding site [chemical binding]; other site 314315005717 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 314315005718 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314315005719 maltose O-acetyltransferase; Provisional; Region: PRK10092 314315005720 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 314315005721 active site 314315005722 substrate binding site [chemical binding]; other site 314315005723 trimer interface [polypeptide binding]; other site 314315005724 CoA binding site [chemical binding]; other site 314315005725 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 314315005726 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 314315005727 DNA binding residues [nucleotide binding] 314315005728 dimer interface [polypeptide binding]; other site 314315005729 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 314315005730 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 314315005731 ABC-ATPase subunit interface; other site 314315005732 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 314315005733 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 314315005734 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 314315005735 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314315005736 Walker A/P-loop; other site 314315005737 ATP binding site [chemical binding]; other site 314315005738 Q-loop/lid; other site 314315005739 ABC transporter signature motif; other site 314315005740 Walker B; other site 314315005741 D-loop; other site 314315005742 H-loop/switch region; other site 314315005743 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 314315005744 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 314315005745 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314315005746 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314315005747 Major Facilitator Superfamily; Region: MFS_1; pfam07690 314315005748 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 314315005749 putative substrate translocation pore; other site 314315005750 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 314315005751 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 314315005752 MarR family; Region: MarR; pfam01047 314315005753 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 314315005754 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 314315005755 putative NAD(P) binding site [chemical binding]; other site 314315005756 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 314315005757 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 314315005758 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 314315005759 active site 314315005760 motif I; other site 314315005761 motif II; other site 314315005762 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 314315005763 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314315005764 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314315005765 ABC transporter; Region: ABC_tran_2; pfam12848 314315005766 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314315005767 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 314315005768 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 314315005769 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 314315005770 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 314315005771 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 314315005772 trmE is a tRNA modification GTPase; Region: trmE; cd04164 314315005773 G1 box; other site 314315005774 GTP/Mg2+ binding site [chemical binding]; other site 314315005775 Switch I region; other site 314315005776 G2 box; other site 314315005777 Switch II region; other site 314315005778 G3 box; other site 314315005779 G4 box; other site 314315005780 G5 box; other site 314315005781 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 314315005782 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 314315005783 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 314315005784 G-X-X-G motif; other site 314315005785 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 314315005786 RxxxH motif; other site 314315005787 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 314315005788 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 314315005789 active site 314315005790 Zn binding site [ion binding]; other site 314315005791 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 314315005792 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 314315005793 ribonuclease P; Reviewed; Region: rnpA; PRK00499 314315005794 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399