-- dump date 20140619_123429 -- class Genbank::misc_feature -- table misc_feature_note -- id note 334390000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 334390000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 334390000003 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 334390000004 Walker A motif; other site 334390000005 ATP binding site [chemical binding]; other site 334390000006 Walker B motif; other site 334390000007 arginine finger; other site 334390000008 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 334390000009 DnaA box-binding interface [nucleotide binding]; other site 334390000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 334390000011 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 334390000012 putative DNA binding surface [nucleotide binding]; other site 334390000013 dimer interface [polypeptide binding]; other site 334390000014 beta-clamp/clamp loader binding surface; other site 334390000015 beta-clamp/translesion DNA polymerase binding surface; other site 334390000016 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 334390000017 recombination protein F; Reviewed; Region: recF; PRK00064 334390000018 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 334390000019 Walker A/P-loop; other site 334390000020 ATP binding site [chemical binding]; other site 334390000021 Q-loop/lid; other site 334390000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334390000023 ABC transporter signature motif; other site 334390000024 Walker B; other site 334390000025 D-loop; other site 334390000026 H-loop/switch region; other site 334390000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 334390000028 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 334390000029 ATP binding site [chemical binding]; other site 334390000030 Mg2+ binding site [ion binding]; other site 334390000031 G-X-G motif; other site 334390000032 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 334390000033 anchoring element; other site 334390000034 dimer interface [polypeptide binding]; other site 334390000035 ATP binding site [chemical binding]; other site 334390000036 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 334390000037 active site 334390000038 putative metal-binding site [ion binding]; other site 334390000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 334390000040 DNA gyrase subunit A; Validated; Region: PRK05560 334390000041 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 334390000042 CAP-like domain; other site 334390000043 active site 334390000044 primary dimer interface [polypeptide binding]; other site 334390000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334390000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334390000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334390000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334390000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334390000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334390000051 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 334390000052 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 334390000053 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 334390000054 dimer interface [polypeptide binding]; other site 334390000055 ssDNA binding site [nucleotide binding]; other site 334390000056 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334390000057 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 334390000058 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 334390000059 DHH family; Region: DHH; pfam01368 334390000060 DHHA1 domain; Region: DHHA1; pfam02272 334390000061 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 334390000062 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 334390000063 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 334390000064 replicative DNA helicase; Region: DnaB; TIGR00665 334390000065 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 334390000066 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 334390000067 Walker A motif; other site 334390000068 ATP binding site [chemical binding]; other site 334390000069 Walker B motif; other site 334390000070 DNA binding loops [nucleotide binding] 334390000071 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 334390000072 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334390000073 putative substrate translocation pore; other site 334390000074 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334390000075 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 334390000076 active site 334390000077 phosphorylation site [posttranslational modification] 334390000078 intermolecular recognition site; other site 334390000079 dimerization interface [polypeptide binding]; other site 334390000080 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 334390000081 DNA binding site [nucleotide binding] 334390000082 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 334390000083 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 334390000084 dimerization interface [polypeptide binding]; other site 334390000085 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 334390000086 putative active site [active] 334390000087 heme pocket [chemical binding]; other site 334390000088 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 334390000089 dimer interface [polypeptide binding]; other site 334390000090 phosphorylation site [posttranslational modification] 334390000091 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 334390000092 ATP binding site [chemical binding]; other site 334390000093 Mg2+ binding site [ion binding]; other site 334390000094 G-X-G motif; other site 334390000095 YycH protein; Region: YycH; pfam07435 334390000096 YycH protein; Region: YycI; pfam09648 334390000097 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 334390000098 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 334390000099 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 334390000100 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 334390000101 Predicted transcriptional regulator [Transcription]; Region: COG1959 334390000102 Transcriptional regulator; Region: Rrf2; pfam02082 334390000103 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334390000104 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390000105 DNA binding site [nucleotide binding] 334390000106 domain linker motif; other site 334390000107 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 334390000108 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 334390000109 putative substrate translocation pore; other site 334390000110 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334390000111 maltose phosphorylase; Provisional; Region: PRK13807 334390000112 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 334390000113 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 334390000114 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 334390000115 beta-phosphoglucomutase; Region: bPGM; TIGR01990 334390000116 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 334390000117 motif II; other site 334390000118 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 334390000119 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 334390000120 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 334390000121 active site 334390000122 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 334390000123 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 334390000124 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 334390000125 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 334390000126 homodimer interface [polypeptide binding]; other site 334390000127 ligand binding site [chemical binding]; other site 334390000128 NAD binding site [chemical binding]; other site 334390000129 catalytic site [active] 334390000130 aromatic amino acid aminotransferase; Validated; Region: PRK07309 334390000131 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 334390000132 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390000133 homodimer interface [polypeptide binding]; other site 334390000134 catalytic residue [active] 334390000135 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 334390000136 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 334390000137 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 334390000138 Walker A motif; other site 334390000139 ATP binding site [chemical binding]; other site 334390000140 Walker B motif; other site 334390000141 arginine finger; other site 334390000142 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 334390000143 Walker A motif; other site 334390000144 ATP binding site [chemical binding]; other site 334390000145 Walker B motif; other site 334390000146 arginine finger; other site 334390000147 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 334390000148 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 334390000149 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 334390000150 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 334390000151 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 334390000152 putative active site [active] 334390000153 catalytic site [active] 334390000154 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 334390000155 putative active site [active] 334390000156 catalytic site [active] 334390000157 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 334390000158 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 334390000159 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 334390000160 Part of AAA domain; Region: AAA_19; pfam13245 334390000161 Family description; Region: UvrD_C_2; pfam13538 334390000162 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 334390000163 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 334390000164 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 334390000165 active site 334390000166 catalytic tetrad [active] 334390000167 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 334390000168 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 334390000169 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 334390000170 putative active site [active] 334390000171 catalytic site [active] 334390000172 putative metal binding site [ion binding]; other site 334390000173 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 334390000174 ArsC family; Region: ArsC; pfam03960 334390000175 putative ArsC-like catalytic residues; other site 334390000176 putative TRX-like catalytic residues [active] 334390000177 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 334390000178 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 334390000179 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 334390000180 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334390000181 Walker A/P-loop; other site 334390000182 ATP binding site [chemical binding]; other site 334390000183 Q-loop/lid; other site 334390000184 ABC transporter signature motif; other site 334390000185 Walker B; other site 334390000186 D-loop; other site 334390000187 H-loop/switch region; other site 334390000188 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334390000189 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334390000190 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 334390000191 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 334390000192 GDP-binding site [chemical binding]; other site 334390000193 ACT binding site; other site 334390000194 IMP binding site; other site 334390000195 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 334390000196 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 334390000197 NAD(P) binding site [chemical binding]; other site 334390000198 catalytic residues [active] 334390000199 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 334390000200 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334390000201 active site 334390000202 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 334390000203 active site 334390000204 dimer interface [polypeptide binding]; other site 334390000205 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334390000206 active site 334390000207 Transposase IS200 like; Region: Y1_Tnp; pfam01797 334390000208 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 334390000209 Transposase; Region: DDE_Tnp_ISL3; pfam01610 334390000210 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 334390000211 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 334390000212 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 334390000213 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 334390000214 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 334390000215 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 334390000216 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 334390000217 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 334390000218 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 334390000219 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 334390000220 Walker A/P-loop; other site 334390000221 ATP binding site [chemical binding]; other site 334390000222 Q-loop/lid; other site 334390000223 ABC transporter signature motif; other site 334390000224 Walker B; other site 334390000225 D-loop; other site 334390000226 H-loop/switch region; other site 334390000227 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 334390000228 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 334390000229 ABC-ATPase subunit interface; other site 334390000230 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 334390000231 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 334390000232 metal binding site [ion binding]; metal-binding site 334390000233 dimer interface [polypeptide binding]; other site 334390000234 TRAM domain; Region: TRAM; pfam01938 334390000235 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 334390000236 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 334390000237 S-adenosylmethionine binding site [chemical binding]; other site 334390000238 Transposase IS200 like; Region: Y1_Tnp; pfam01797 334390000239 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334390000240 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334390000241 Probable transposase; Region: OrfB_IS605; pfam01385 334390000242 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 334390000243 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 334390000244 DltD N-terminal region; Region: DltD_N; pfam04915 334390000245 DltD central region; Region: DltD_M; pfam04918 334390000246 DltD C-terminal region; Region: DltD_C; pfam04914 334390000247 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 334390000248 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 334390000249 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 334390000250 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 334390000251 acyl-activating enzyme (AAE) consensus motif; other site 334390000252 AMP binding site [chemical binding]; other site 334390000253 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 334390000254 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334390000255 active site 334390000256 metal binding site [ion binding]; metal-binding site 334390000257 DNA binding site [nucleotide binding] 334390000258 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 334390000259 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 334390000260 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 334390000261 Walker A/P-loop; other site 334390000262 ATP binding site [chemical binding]; other site 334390000263 Q-loop/lid; other site 334390000264 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334390000265 ABC transporter signature motif; other site 334390000266 Walker B; other site 334390000267 D-loop; other site 334390000268 H-loop/switch region; other site 334390000269 seryl-tRNA synthetase; Provisional; Region: PRK05431 334390000270 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 334390000271 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 334390000272 dimer interface [polypeptide binding]; other site 334390000273 active site 334390000274 motif 1; other site 334390000275 motif 2; other site 334390000276 motif 3; other site 334390000277 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 334390000278 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 334390000279 active site 334390000280 HIGH motif; other site 334390000281 dimer interface [polypeptide binding]; other site 334390000282 KMSKS motif; other site 334390000283 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 334390000284 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 334390000285 active site 334390000286 HIGH motif; other site 334390000287 dimer interface [polypeptide binding]; other site 334390000288 KMSKS motif; other site 334390000289 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 334390000290 RNA binding surface [nucleotide binding]; other site 334390000291 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 334390000292 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 334390000293 substrate binding pocket [chemical binding]; other site 334390000294 membrane-bound complex binding site; other site 334390000295 hinge residues; other site 334390000296 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 334390000297 dimer interface [polypeptide binding]; other site 334390000298 conserved gate region; other site 334390000299 putative PBP binding loops; other site 334390000300 ABC-ATPase subunit interface; other site 334390000301 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 334390000302 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 334390000303 Walker A/P-loop; other site 334390000304 ATP binding site [chemical binding]; other site 334390000305 Q-loop/lid; other site 334390000306 ABC transporter signature motif; other site 334390000307 Walker B; other site 334390000308 D-loop; other site 334390000309 H-loop/switch region; other site 334390000310 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 334390000311 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 334390000312 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334390000313 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334390000314 Probable transposase; Region: OrfB_IS605; pfam01385 334390000315 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 334390000316 Transposase IS200 like; Region: Y1_Tnp; pfam01797 334390000317 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 334390000318 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 334390000319 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 334390000320 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 334390000321 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 334390000322 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 334390000323 ParB-like nuclease domain; Region: ParBc; pfam02195 334390000324 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 334390000325 ParB-like nuclease domain; Region: ParB; smart00470 334390000326 KorB domain; Region: KorB; pfam08535 334390000327 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 334390000328 GTP-binding protein YchF; Reviewed; Region: PRK09601 334390000329 YchF GTPase; Region: YchF; cd01900 334390000330 G1 box; other site 334390000331 GTP/Mg2+ binding site [chemical binding]; other site 334390000332 Switch I region; other site 334390000333 G2 box; other site 334390000334 Switch II region; other site 334390000335 G3 box; other site 334390000336 G4 box; other site 334390000337 G5 box; other site 334390000338 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 334390000339 Protein of unknown function (DUF1129); Region: DUF1129; pfam06570 334390000340 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK06843 334390000341 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 334390000342 active site 334390000343 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390000344 Helix-turn-helix domain; Region: HTH_38; pfam13936 334390000345 Integrase core domain; Region: rve; pfam00665 334390000346 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390000347 MULE transposase domain; Region: MULE; pfam10551 334390000348 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 334390000349 Chain length determinant protein; Region: Wzz; cl15801 334390000350 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 334390000351 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 334390000352 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 334390000353 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 334390000354 Bacterial sugar transferase; Region: Bac_transf; pfam02397 334390000355 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 334390000356 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 334390000357 active site 334390000358 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 334390000359 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 334390000360 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 334390000361 active site 334390000362 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 334390000363 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 334390000364 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 334390000365 active site 334390000366 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 334390000367 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 334390000368 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 334390000369 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 334390000370 substrate binding site; other site 334390000371 tetramer interface; other site 334390000372 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 334390000373 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 334390000374 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 334390000375 NAD binding site [chemical binding]; other site 334390000376 substrate binding site [chemical binding]; other site 334390000377 homodimer interface [polypeptide binding]; other site 334390000378 active site 334390000379 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 334390000380 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 334390000381 NADP binding site [chemical binding]; other site 334390000382 active site 334390000383 putative substrate binding site [chemical binding]; other site 334390000384 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390000385 MULE transposase domain; Region: MULE; pfam10551 334390000386 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334390000387 AAA domain; Region: AAA_21; pfam13304 334390000388 Walker A/P-loop; other site 334390000389 ATP binding site [chemical binding]; other site 334390000390 Protein implicated in ribosomal biogenesis, Nop56p homolog [Translation, ribosomal structure and biogenesis]; Region: SIK1; COG1498 334390000391 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 334390000392 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 334390000393 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 334390000394 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334390000395 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 334390000396 active site 334390000397 phosphorylation site [posttranslational modification] 334390000398 intermolecular recognition site; other site 334390000399 dimerization interface [polypeptide binding]; other site 334390000400 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 334390000401 DNA binding site [nucleotide binding] 334390000402 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334390000403 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 334390000404 dimer interface [polypeptide binding]; other site 334390000405 phosphorylation site [posttranslational modification] 334390000406 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 334390000407 ATP binding site [chemical binding]; other site 334390000408 Mg2+ binding site [ion binding]; other site 334390000409 G-X-G motif; other site 334390000410 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 334390000411 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 334390000412 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 334390000413 AzlC protein; Region: AzlC; pfam03591 334390000414 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 334390000415 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 334390000416 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 334390000417 PemK-like protein; Region: PemK; pfam02452 334390000418 Serine hydrolase; Region: Ser_hydrolase; cl17834 334390000419 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 334390000420 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 334390000421 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 334390000422 S-adenosylmethionine binding site [chemical binding]; other site 334390000423 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 334390000424 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 334390000425 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 334390000426 Potassium binding sites [ion binding]; other site 334390000427 Cesium cation binding sites [ion binding]; other site 334390000428 AIR carboxylase; Region: AIRC; pfam00731 334390000429 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 334390000430 ATP-grasp domain; Region: ATP-grasp; pfam02222 334390000431 adenylosuccinate lyase; Provisional; Region: PRK07492 334390000432 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 334390000433 tetramer interface [polypeptide binding]; other site 334390000434 active site 334390000435 Double zinc ribbon; Region: DZR; pfam12773 334390000436 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 334390000437 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 334390000438 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 334390000439 Double zinc ribbon; Region: DZR; pfam12773 334390000440 Predicted membrane protein [Function unknown]; Region: COG4640 334390000441 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 334390000442 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 334390000443 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 334390000444 ATP binding site [chemical binding]; other site 334390000445 active site 334390000446 substrate binding site [chemical binding]; other site 334390000447 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 334390000448 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 334390000449 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 334390000450 putative active site [active] 334390000451 catalytic triad [active] 334390000452 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 334390000453 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 334390000454 dimerization interface [polypeptide binding]; other site 334390000455 ATP binding site [chemical binding]; other site 334390000456 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 334390000457 dimerization interface [polypeptide binding]; other site 334390000458 ATP binding site [chemical binding]; other site 334390000459 amidophosphoribosyltransferase; Provisional; Region: PRK07272 334390000460 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 334390000461 active site 334390000462 tetramer interface [polypeptide binding]; other site 334390000463 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334390000464 active site 334390000465 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 334390000466 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 334390000467 dimerization interface [polypeptide binding]; other site 334390000468 putative ATP binding site [chemical binding]; other site 334390000469 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 334390000470 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 334390000471 active site 334390000472 substrate binding site [chemical binding]; other site 334390000473 cosubstrate binding site; other site 334390000474 catalytic site [active] 334390000475 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 334390000476 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 334390000477 purine monophosphate binding site [chemical binding]; other site 334390000478 dimer interface [polypeptide binding]; other site 334390000479 putative catalytic residues [active] 334390000480 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 334390000481 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 334390000482 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 334390000483 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 334390000484 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 334390000485 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 334390000486 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334390000487 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334390000488 Probable transposase; Region: OrfB_IS605; pfam01385 334390000489 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 334390000490 Transposase IS200 like; Region: Y1_Tnp; pfam01797 334390000491 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 334390000492 catalytic core [active] 334390000493 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 334390000494 aromatic amino acid aminotransferase; Validated; Region: PRK07309 334390000495 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 334390000496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390000497 homodimer interface [polypeptide binding]; other site 334390000498 catalytic residue [active] 334390000499 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 334390000500 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 334390000501 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 334390000502 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 334390000503 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 334390000504 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 334390000505 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 334390000506 putative FMN binding site [chemical binding]; other site 334390000507 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 334390000508 Cadmium resistance transporter; Region: Cad; pfam03596 334390000509 EamA-like transporter family; Region: EamA; pfam00892 334390000510 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 334390000511 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 334390000512 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 334390000513 heme-binding site [chemical binding]; other site 334390000514 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 334390000515 heme-binding site [chemical binding]; other site 334390000516 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 334390000517 heme-binding site [chemical binding]; other site 334390000518 heme ABC transporter, heme-binding protein isdE; Region: IsdE; TIGR03659 334390000519 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 334390000520 intersubunit interface [polypeptide binding]; other site 334390000521 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 334390000522 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 334390000523 ABC-ATPase subunit interface; other site 334390000524 dimer interface [polypeptide binding]; other site 334390000525 putative PBP binding regions; other site 334390000526 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 334390000527 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 334390000528 Walker A/P-loop; other site 334390000529 ATP binding site [chemical binding]; other site 334390000530 Q-loop/lid; other site 334390000531 ABC transporter signature motif; other site 334390000532 Walker B; other site 334390000533 D-loop; other site 334390000534 H-loop/switch region; other site 334390000535 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 334390000536 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 334390000537 putative substrate translocation pore; other site 334390000538 MucBP domain; Region: MucBP; pfam06458 334390000539 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 334390000540 active site 334390000541 putative catalytic site [active] 334390000542 DNA binding site [nucleotide binding] 334390000543 putative phosphate binding site [ion binding]; other site 334390000544 metal binding site A [ion binding]; metal-binding site 334390000545 AP binding site [nucleotide binding]; other site 334390000546 metal binding site B [ion binding]; metal-binding site 334390000547 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_13; cd12178 334390000548 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 334390000549 putative ligand binding site [chemical binding]; other site 334390000550 putative NAD binding site [chemical binding]; other site 334390000551 catalytic site [active] 334390000552 allantoate amidohydrolase; Region: AllC; TIGR03176 334390000553 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 334390000554 active site 334390000555 metal binding site [ion binding]; metal-binding site 334390000556 dimer interface [polypeptide binding]; other site 334390000557 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390000558 Helix-turn-helix domain; Region: HTH_38; pfam13936 334390000559 Homeodomain-like domain; Region: HTH_32; pfam13565 334390000560 Integrase core domain; Region: rve; pfam00665 334390000561 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 334390000562 ureidoglycolate dehydrogenase; Provisional; Region: PRK15025 334390000563 membrane protein FdrA; Validated; Region: PRK06091 334390000564 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 334390000565 active site 334390000566 tetramer interface [polypeptide binding]; other site 334390000567 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 334390000568 putative FMN binding site [chemical binding]; other site 334390000569 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 334390000570 active site 334390000571 catalytic triad [active] 334390000572 oxyanion hole [active] 334390000573 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_u3; cd11540 334390000574 putative metal binding site [ion binding]; other site 334390000575 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 334390000576 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 334390000577 catalytic Zn binding site [ion binding]; other site 334390000578 NAD(P) binding site [chemical binding]; other site 334390000579 structural Zn binding site [ion binding]; other site 334390000580 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 334390000581 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 334390000582 Zn binding site [ion binding]; other site 334390000583 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 334390000584 catalytic tetrad [active] 334390000585 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334390000586 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334390000587 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 334390000588 Serine hydrolase; Region: Ser_hydrolase; cl17834 334390000589 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 334390000590 dimer interface [polypeptide binding]; other site 334390000591 FMN binding site [chemical binding]; other site 334390000592 NADPH bind site [chemical binding]; other site 334390000593 Transposase IS200 like; Region: Y1_Tnp; pfam01797 334390000594 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334390000595 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334390000596 Probable transposase; Region: OrfB_IS605; pfam01385 334390000597 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 334390000598 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 334390000599 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 334390000600 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 334390000601 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 334390000602 Part of AAA domain; Region: AAA_19; pfam13245 334390000603 Family description; Region: UvrD_C_2; pfam13538 334390000604 exopolyphosphatase; Region: exo_poly_only; TIGR03706 334390000605 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 334390000606 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 334390000607 homodimer interface [polypeptide binding]; other site 334390000608 catalytic residues [active] 334390000609 NAD binding site [chemical binding]; other site 334390000610 substrate binding pocket [chemical binding]; other site 334390000611 flexible flap; other site 334390000612 NAD-dependent deacetylase; Provisional; Region: PRK00481 334390000613 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 334390000614 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 334390000615 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334390000616 putative substrate translocation pore; other site 334390000617 Protein of unknown function DUF72; Region: DUF72; pfam01904 334390000618 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 334390000619 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 334390000620 HIGH motif; other site 334390000621 active site 334390000622 KMSKS motif; other site 334390000623 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 334390000624 tRNA binding surface [nucleotide binding]; other site 334390000625 anticodon binding site; other site 334390000626 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 334390000627 dimer interface [polypeptide binding]; other site 334390000628 putative tRNA-binding site [nucleotide binding]; other site 334390000629 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 334390000630 active site 334390000631 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 334390000632 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 334390000633 putative active site [active] 334390000634 putative metal binding site [ion binding]; other site 334390000635 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 334390000636 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 334390000637 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 334390000638 S-adenosylmethionine binding site [chemical binding]; other site 334390000639 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 334390000640 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 334390000641 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 334390000642 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 334390000643 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 334390000644 metal binding site [ion binding]; metal-binding site 334390000645 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334390000646 Walker A/P-loop; other site 334390000647 ATP binding site [chemical binding]; other site 334390000648 Q-loop/lid; other site 334390000649 ABC transporter signature motif; other site 334390000650 Walker B; other site 334390000651 D-loop; other site 334390000652 H-loop/switch region; other site 334390000653 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 334390000654 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 334390000655 ABC-ATPase subunit interface; other site 334390000656 dimer interface [polypeptide binding]; other site 334390000657 putative PBP binding regions; other site 334390000658 pur operon repressor; Provisional; Region: PRK09213 334390000659 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 334390000660 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334390000661 active site 334390000662 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 334390000663 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 334390000664 Substrate binding site; other site 334390000665 Mg++ binding site; other site 334390000666 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 334390000667 active site 334390000668 substrate binding site [chemical binding]; other site 334390000669 CoA binding site [chemical binding]; other site 334390000670 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 334390000671 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 334390000672 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334390000673 active site 334390000674 sugar phosphate phosphatase; Provisional; Region: PRK10513 334390000675 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 334390000676 active site 334390000677 motif I; other site 334390000678 motif II; other site 334390000679 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 334390000680 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334390000681 Zn2+ binding site [ion binding]; other site 334390000682 Mg2+ binding site [ion binding]; other site 334390000683 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 334390000684 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 334390000685 CTP synthetase; Validated; Region: pyrG; PRK05380 334390000686 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 334390000687 Catalytic site [active] 334390000688 active site 334390000689 UTP binding site [chemical binding]; other site 334390000690 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 334390000691 active site 334390000692 putative oxyanion hole; other site 334390000693 catalytic triad [active] 334390000694 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 334390000695 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 334390000696 hinge; other site 334390000697 active site 334390000698 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 334390000699 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 334390000700 active site 334390000701 catalytic site [active] 334390000702 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 334390000703 heat shock protein HtpX; Provisional; Region: PRK04897 334390000704 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 334390000705 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 334390000706 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334390000707 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334390000708 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 334390000709 DEAD-like helicases superfamily; Region: DEXDc; smart00487 334390000710 ATP binding site [chemical binding]; other site 334390000711 Mg++ binding site [ion binding]; other site 334390000712 motif III; other site 334390000713 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 334390000714 nucleotide binding region [chemical binding]; other site 334390000715 ATP-binding site [chemical binding]; other site 334390000716 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 334390000717 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 334390000718 alanine racemase; Reviewed; Region: alr; PRK00053 334390000719 active site 334390000720 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 334390000721 dimer interface [polypeptide binding]; other site 334390000722 substrate binding site [chemical binding]; other site 334390000723 catalytic residues [active] 334390000724 PemK-like protein; Region: PemK; pfam02452 334390000725 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 334390000726 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 334390000727 putative active site [active] 334390000728 catalytic residue [active] 334390000729 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 334390000730 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 334390000731 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 334390000732 ATP binding site [chemical binding]; other site 334390000733 putative Mg++ binding site [ion binding]; other site 334390000734 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 334390000735 nucleotide binding region [chemical binding]; other site 334390000736 ATP-binding site [chemical binding]; other site 334390000737 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 334390000738 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 334390000739 RNA binding surface [nucleotide binding]; other site 334390000740 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 334390000741 Septum formation initiator; Region: DivIC; pfam04977 334390000742 hypothetical protein; Provisional; Region: PRK08582 334390000743 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 334390000744 RNA binding site [nucleotide binding]; other site 334390000745 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 334390000746 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 334390000747 Ligand Binding Site [chemical binding]; other site 334390000748 TilS substrate C-terminal domain; Region: TilS_C; smart00977 334390000749 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334390000750 active site 334390000751 FtsH Extracellular; Region: FtsH_ext; pfam06480 334390000752 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 334390000753 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 334390000754 Walker A motif; other site 334390000755 ATP binding site [chemical binding]; other site 334390000756 Walker B motif; other site 334390000757 arginine finger; other site 334390000758 Peptidase family M41; Region: Peptidase_M41; pfam01434 334390000759 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 334390000760 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 334390000761 dimerization interface [polypeptide binding]; other site 334390000762 domain crossover interface; other site 334390000763 redox-dependent activation switch; other site 334390000764 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 334390000765 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 334390000766 FMN binding site [chemical binding]; other site 334390000767 active site 334390000768 catalytic residues [active] 334390000769 substrate binding site [chemical binding]; other site 334390000770 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 334390000771 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 334390000772 dimer interface [polypeptide binding]; other site 334390000773 putative anticodon binding site; other site 334390000774 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 334390000775 motif 1; other site 334390000776 active site 334390000777 motif 2; other site 334390000778 motif 3; other site 334390000779 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 334390000780 polymerase nucleotide-binding site; other site 334390000781 DNA-binding residues [nucleotide binding]; DNA binding site 334390000782 nucleotide binding site [chemical binding]; other site 334390000783 primase nucleotide-binding site [nucleotide binding]; other site 334390000784 Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942 334390000785 Helix-turn-helix domain; Region: HTH_17; pfam12728 334390000786 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 334390000787 non-specific DNA binding site [nucleotide binding]; other site 334390000788 salt bridge; other site 334390000789 sequence-specific DNA binding site [nucleotide binding]; other site 334390000790 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 334390000791 Int/Topo IB signature motif; other site 334390000792 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 334390000793 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334390000794 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 334390000795 NAD binding site [chemical binding]; other site 334390000796 dimer interface [polypeptide binding]; other site 334390000797 substrate binding site [chemical binding]; other site 334390000798 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 334390000799 metabolite-proton symporter; Region: 2A0106; TIGR00883 334390000800 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 334390000801 putative substrate translocation pore; other site 334390000802 Transposase IS200 like; Region: Y1_Tnp; pfam01797 334390000803 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334390000804 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334390000805 Probable transposase; Region: OrfB_IS605; pfam01385 334390000806 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 334390000807 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 334390000808 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 334390000809 POT family; Region: PTR2; cl17359 334390000810 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 334390000811 putative phosphoesterase; Region: acc_ester; TIGR03729 334390000812 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334390000813 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 334390000814 aspartate racemase; Region: asp_race; TIGR00035 334390000815 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 334390000816 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334390000817 DNA-binding site [nucleotide binding]; DNA binding site 334390000818 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 334390000819 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 334390000820 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 334390000821 active site 334390000822 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 334390000823 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 334390000824 homodimer interface [polypeptide binding]; other site 334390000825 NAD binding pocket [chemical binding]; other site 334390000826 ATP binding pocket [chemical binding]; other site 334390000827 Mg binding site [ion binding]; other site 334390000828 active-site loop [active] 334390000829 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 334390000830 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 334390000831 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 334390000832 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 334390000833 RNA binding site [nucleotide binding]; other site 334390000834 hypothetical protein; Provisional; Region: PRK04351 334390000835 SprT homologues; Region: SprT; cl01182 334390000836 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 334390000837 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 334390000838 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 334390000839 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 334390000840 Predicted permeases [General function prediction only]; Region: COG0679 334390000841 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 334390000842 catalytic core [active] 334390000843 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 334390000844 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 334390000845 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 334390000846 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 334390000847 trimer interface [polypeptide binding]; other site 334390000848 active site 334390000849 G bulge; other site 334390000850 maltose O-acetyltransferase; Provisional; Region: PRK10092 334390000851 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 334390000852 active site 334390000853 substrate binding site [chemical binding]; other site 334390000854 trimer interface [polypeptide binding]; other site 334390000855 CoA binding site [chemical binding]; other site 334390000856 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 334390000857 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334390000858 active site 334390000859 dimer interface [polypeptide binding]; other site 334390000860 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334390000861 Coenzyme A binding pocket [chemical binding]; other site 334390000862 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 334390000863 trimer interface [polypeptide binding]; other site 334390000864 active site 334390000865 DNA repair protein RadA; Provisional; Region: PRK11823 334390000866 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 334390000867 Walker A motif/ATP binding site; other site 334390000868 ATP binding site [chemical binding]; other site 334390000869 Walker B motif; other site 334390000870 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 334390000871 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 334390000872 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 334390000873 putative active site [active] 334390000874 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 334390000875 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 334390000876 active site 334390000877 HIGH motif; other site 334390000878 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 334390000879 active site 334390000880 KMSKS motif; other site 334390000881 hypothetical protein; Provisional; Region: PRK13690 334390000882 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 334390000883 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 334390000884 active site 334390000885 HIGH motif; other site 334390000886 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 334390000887 KMSKS motif; other site 334390000888 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 334390000889 tRNA binding surface [nucleotide binding]; other site 334390000890 anticodon binding site; other site 334390000891 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 334390000892 active site 334390000893 metal binding site [ion binding]; metal-binding site 334390000894 dimerization interface [polypeptide binding]; other site 334390000895 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 334390000896 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 334390000897 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 334390000898 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 334390000899 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334390000900 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 334390000901 DNA binding residues [nucleotide binding] 334390000902 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 334390000903 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 334390000904 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 334390000905 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 334390000906 putative homodimer interface [polypeptide binding]; other site 334390000907 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 334390000908 heterodimer interface [polypeptide binding]; other site 334390000909 homodimer interface [polypeptide binding]; other site 334390000910 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 334390000911 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 334390000912 23S rRNA interface [nucleotide binding]; other site 334390000913 L7/L12 interface [polypeptide binding]; other site 334390000914 putative thiostrepton binding site; other site 334390000915 L25 interface [polypeptide binding]; other site 334390000916 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 334390000917 mRNA/rRNA interface [nucleotide binding]; other site 334390000918 Amino acid permease; Region: AA_permease_2; pfam13520 334390000919 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 334390000920 23S rRNA interface [nucleotide binding]; other site 334390000921 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 334390000922 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 334390000923 peripheral dimer interface [polypeptide binding]; other site 334390000924 core dimer interface [polypeptide binding]; other site 334390000925 L10 interface [polypeptide binding]; other site 334390000926 L11 interface [polypeptide binding]; other site 334390000927 putative EF-Tu interaction site [polypeptide binding]; other site 334390000928 putative EF-G interaction site [polypeptide binding]; other site 334390000929 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 334390000930 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 334390000931 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 334390000932 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 334390000933 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 334390000934 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334390000935 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 334390000936 Walker A/P-loop; other site 334390000937 ATP binding site [chemical binding]; other site 334390000938 Q-loop/lid; other site 334390000939 ABC transporter signature motif; other site 334390000940 Walker B; other site 334390000941 D-loop; other site 334390000942 H-loop/switch region; other site 334390000943 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 334390000944 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334390000945 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 334390000946 Walker A/P-loop; other site 334390000947 ATP binding site [chemical binding]; other site 334390000948 Q-loop/lid; other site 334390000949 ABC transporter signature motif; other site 334390000950 Walker B; other site 334390000951 D-loop; other site 334390000952 H-loop/switch region; other site 334390000953 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 334390000954 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 334390000955 putative catalytic cysteine [active] 334390000956 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 334390000957 putative active site [active] 334390000958 metal binding site [ion binding]; metal-binding site 334390000959 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 334390000960 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 334390000961 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 334390000962 dimer interface [polypeptide binding]; other site 334390000963 putative radical transfer pathway; other site 334390000964 diiron center [ion binding]; other site 334390000965 tyrosyl radical; other site 334390000966 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 334390000967 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 334390000968 Class I ribonucleotide reductase; Region: RNR_I; cd01679 334390000969 active site 334390000970 dimer interface [polypeptide binding]; other site 334390000971 catalytic residues [active] 334390000972 effector binding site; other site 334390000973 R2 peptide binding site; other site 334390000974 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 334390000975 catalytic residues [active] 334390000976 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 334390000977 nucleoside/Zn binding site; other site 334390000978 dimer interface [polypeptide binding]; other site 334390000979 catalytic motif [active] 334390000980 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 334390000981 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 334390000982 Walker A motif; other site 334390000983 ATP binding site [chemical binding]; other site 334390000984 Walker B motif; other site 334390000985 arginine finger; other site 334390000986 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 334390000987 hypothetical protein; Validated; Region: PRK00153 334390000988 recombination protein RecR; Reviewed; Region: recR; PRK00076 334390000989 RecR protein; Region: RecR; pfam02132 334390000990 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 334390000991 putative active site [active] 334390000992 putative metal-binding site [ion binding]; other site 334390000993 tetramer interface [polypeptide binding]; other site 334390000994 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 334390000995 thymidylate kinase; Validated; Region: tmk; PRK00698 334390000996 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 334390000997 TMP-binding site; other site 334390000998 ATP-binding site [chemical binding]; other site 334390000999 Protein of unknown function (DUF970); Region: DUF970; pfam06153 334390001000 Nitrogen regulatory protein P-II; Region: P-II; smart00938 334390001001 DNA polymerase III subunit delta'; Validated; Region: PRK08058 334390001002 DNA polymerase III subunit delta'; Validated; Region: PRK08485 334390001003 Protein of unknown function (DUF972); Region: DUF972; pfam06156 334390001004 Predicted methyltransferases [General function prediction only]; Region: COG0313 334390001005 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 334390001006 putative SAM binding site [chemical binding]; other site 334390001007 putative homodimer interface [polypeptide binding]; other site 334390001008 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 334390001009 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 334390001010 active site 334390001011 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 334390001012 active site 334390001013 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 334390001014 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 334390001015 polyphosphate kinase; Provisional; Region: PRK05443 334390001016 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 334390001017 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 334390001018 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 334390001019 putative domain interface [polypeptide binding]; other site 334390001020 putative active site [active] 334390001021 catalytic site [active] 334390001022 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 334390001023 putative domain interface [polypeptide binding]; other site 334390001024 putative active site [active] 334390001025 catalytic site [active] 334390001026 exopolyphosphatase; Region: exo_poly_only; TIGR03706 334390001027 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 334390001028 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 334390001029 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 334390001030 NAD binding site [chemical binding]; other site 334390001031 homodimer interface [polypeptide binding]; other site 334390001032 active site 334390001033 substrate binding site [chemical binding]; other site 334390001034 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 334390001035 Response regulator receiver domain; Region: Response_reg; pfam00072 334390001036 active site 334390001037 phosphorylation site [posttranslational modification] 334390001038 intermolecular recognition site; other site 334390001039 dimerization interface [polypeptide binding]; other site 334390001040 YcbB domain; Region: YcbB; pfam08664 334390001041 ornithine carbamoyltransferase; Provisional; Region: PRK04284 334390001042 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 334390001043 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 334390001044 carbamate kinase; Reviewed; Region: PRK12686 334390001045 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 334390001046 putative substrate binding site [chemical binding]; other site 334390001047 nucleotide binding site [chemical binding]; other site 334390001048 nucleotide binding site [chemical binding]; other site 334390001049 homodimer interface [polypeptide binding]; other site 334390001050 arginine deiminase; Provisional; Region: PRK01388 334390001051 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 334390001052 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 334390001053 substrate binding site [chemical binding]; other site 334390001054 THF binding site; other site 334390001055 zinc-binding site [ion binding]; other site 334390001056 transaminase; Validated; Region: PRK07324 334390001057 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 334390001058 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390001059 homodimer interface [polypeptide binding]; other site 334390001060 catalytic residue [active] 334390001061 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 334390001062 Glycoprotease family; Region: Peptidase_M22; pfam00814 334390001063 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 334390001064 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334390001065 Coenzyme A binding pocket [chemical binding]; other site 334390001066 UGMP family protein; Validated; Region: PRK09604 334390001067 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 334390001068 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 334390001069 MarR family; Region: MarR_2; pfam12802 334390001070 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334390001071 MarR family; Region: MarR_2; cl17246 334390001072 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 334390001073 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 334390001074 dimer interface [polypeptide binding]; other site 334390001075 active site 334390001076 CoA binding pocket [chemical binding]; other site 334390001077 acyl carrier protein; Provisional; Region: acpP; PRK00982 334390001078 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 334390001079 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 334390001080 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 334390001081 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390001082 NAD(P) binding site [chemical binding]; other site 334390001083 active site 334390001084 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 334390001085 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 334390001086 dimer interface [polypeptide binding]; other site 334390001087 active site 334390001088 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 334390001089 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 334390001090 carboxyltransferase (CT) interaction site; other site 334390001091 biotinylation site [posttranslational modification]; other site 334390001092 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 334390001093 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 334390001094 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 334390001095 ATP-grasp domain; Region: ATP-grasp_4; cl17255 334390001096 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 334390001097 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 334390001098 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 334390001099 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; COG0825 334390001100 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06079 334390001101 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 334390001102 NAD binding site [chemical binding]; other site 334390001103 homotetramer interface [polypeptide binding]; other site 334390001104 homodimer interface [polypeptide binding]; other site 334390001105 substrate binding site [chemical binding]; other site 334390001106 active site 334390001107 BioY family; Region: BioY; pfam02632 334390001108 Biotin operon repressor [Transcription]; Region: BirA; COG1654 334390001109 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 334390001110 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 334390001111 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 334390001112 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 334390001113 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 334390001114 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334390001115 Walker A/P-loop; other site 334390001116 ATP binding site [chemical binding]; other site 334390001117 Q-loop/lid; other site 334390001118 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334390001119 ABC transporter signature motif; other site 334390001120 Walker B; other site 334390001121 D-loop; other site 334390001122 H-loop/switch region; other site 334390001123 ABC transporter; Region: ABC_tran_2; pfam12848 334390001124 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334390001125 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 334390001126 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 334390001127 CoA binding domain; Region: CoA_binding; pfam02629 334390001128 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 334390001129 oligomerisation interface [polypeptide binding]; other site 334390001130 mobile loop; other site 334390001131 roof hairpin; other site 334390001132 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 334390001133 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 334390001134 ring oligomerisation interface [polypeptide binding]; other site 334390001135 ATP/Mg binding site [chemical binding]; other site 334390001136 stacking interactions; other site 334390001137 hinge regions; other site 334390001138 Amino acid permease; Region: AA_permease_2; pfam13520 334390001139 Uncharacterized conserved protein [Function unknown]; Region: COG1739 334390001140 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 334390001141 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 334390001142 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 334390001143 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 334390001144 ATP binding site [chemical binding]; other site 334390001145 putative Mg++ binding site [ion binding]; other site 334390001146 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 334390001147 nucleotide binding region [chemical binding]; other site 334390001148 ATP-binding site [chemical binding]; other site 334390001149 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 334390001150 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334390001151 active site 334390001152 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 334390001153 30S subunit binding site; other site 334390001154 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12906 334390001155 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 334390001156 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 334390001157 nucleotide binding region [chemical binding]; other site 334390001158 ATP-binding site [chemical binding]; other site 334390001159 peptide chain release factor 2; Validated; Region: prfB; PRK00578 334390001160 PCRF domain; Region: PCRF; pfam03462 334390001161 RF-1 domain; Region: RF-1; pfam00472 334390001162 PspC domain; Region: PspC; pfam04024 334390001163 Predicted membrane protein [Function unknown]; Region: COG1950 334390001164 HPr kinase/phosphorylase; Provisional; Region: PRK05428 334390001165 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 334390001166 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 334390001167 Hpr binding site; other site 334390001168 active site 334390001169 homohexamer subunit interaction site [polypeptide binding]; other site 334390001170 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 334390001171 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 334390001172 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 334390001173 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 334390001174 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 334390001175 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 334390001176 active site 334390001177 tetramer interface; other site 334390001178 Predicted amidohydrolase [General function prediction only]; Region: COG0388 334390001179 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 334390001180 putative active site [active] 334390001181 catalytic triad [active] 334390001182 putative dimer interface [polypeptide binding]; other site 334390001183 transaminase; Reviewed; Region: PRK08068 334390001184 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 334390001185 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390001186 homodimer interface [polypeptide binding]; other site 334390001187 catalytic residue [active] 334390001188 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 334390001189 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 334390001190 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 334390001191 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 334390001192 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 334390001193 conserved cys residue [active] 334390001194 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 334390001195 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 334390001196 dimer interface [polypeptide binding]; other site 334390001197 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390001198 catalytic residue [active] 334390001199 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 334390001200 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 334390001201 homodimer interface [polypeptide binding]; other site 334390001202 substrate-cofactor binding pocket; other site 334390001203 catalytic residue [active] 334390001204 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 334390001205 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334390001206 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 334390001207 NAD binding site [chemical binding]; other site 334390001208 dimer interface [polypeptide binding]; other site 334390001209 substrate binding site [chemical binding]; other site 334390001210 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 334390001211 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 334390001212 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 334390001213 active site 334390001214 substrate binding site [chemical binding]; other site 334390001215 metal binding site [ion binding]; metal-binding site 334390001216 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334390001217 Zn2+ binding site [ion binding]; other site 334390001218 Mg2+ binding site [ion binding]; other site 334390001219 excinuclease ABC subunit B; Provisional; Region: PRK05298 334390001220 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 334390001221 ATP binding site [chemical binding]; other site 334390001222 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 334390001223 nucleotide binding region [chemical binding]; other site 334390001224 ATP-binding site [chemical binding]; other site 334390001225 Ultra-violet resistance protein B; Region: UvrB; pfam12344 334390001226 UvrB/uvrC motif; Region: UVR; pfam02151 334390001227 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 334390001228 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 334390001229 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 334390001230 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 334390001231 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 334390001232 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 334390001233 active site 334390001234 catalytic site [active] 334390001235 substrate binding site [chemical binding]; other site 334390001236 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 334390001237 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 334390001238 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 334390001239 phosphate binding site [ion binding]; other site 334390001240 putative substrate binding pocket [chemical binding]; other site 334390001241 dimer interface [polypeptide binding]; other site 334390001242 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 334390001243 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 334390001244 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 334390001245 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 334390001246 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 334390001247 oligomer interface [polypeptide binding]; other site 334390001248 active site residues [active] 334390001249 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 334390001250 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 334390001251 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 334390001252 Phosphoglycerate kinase; Region: PGK; pfam00162 334390001253 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 334390001254 substrate binding site [chemical binding]; other site 334390001255 hinge regions; other site 334390001256 ADP binding site [chemical binding]; other site 334390001257 catalytic site [active] 334390001258 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 334390001259 triosephosphate isomerase; Provisional; Region: PRK14565 334390001260 substrate binding site [chemical binding]; other site 334390001261 dimer interface [polypeptide binding]; other site 334390001262 catalytic triad [active] 334390001263 enolase; Provisional; Region: eno; PRK00077 334390001264 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 334390001265 dimer interface [polypeptide binding]; other site 334390001266 metal binding site [ion binding]; metal-binding site 334390001267 substrate binding pocket [chemical binding]; other site 334390001268 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 334390001269 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 334390001270 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 334390001271 Cl- selectivity filter; other site 334390001272 Cl- binding residues [ion binding]; other site 334390001273 pore gating glutamate residue; other site 334390001274 dimer interface [polypeptide binding]; other site 334390001275 H+/Cl- coupling transport residue; other site 334390001276 TrkA-C domain; Region: TrkA_C; pfam02080 334390001277 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 334390001278 ribonuclease R; Region: RNase_R; TIGR02063 334390001279 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 334390001280 RNB domain; Region: RNB; pfam00773 334390001281 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 334390001282 RNA binding site [nucleotide binding]; other site 334390001283 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 334390001284 SmpB-tmRNA interface; other site 334390001285 Tubby C 2; Region: Tub_2; cl02043 334390001286 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 334390001287 ligand binding site [chemical binding]; other site 334390001288 active site 334390001289 UGI interface [polypeptide binding]; other site 334390001290 catalytic site [active] 334390001291 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 334390001292 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 334390001293 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334390001294 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 334390001295 Coenzyme A binding pocket [chemical binding]; other site 334390001296 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 334390001297 active site 334390001298 catalytic site [active] 334390001299 substrate binding site [chemical binding]; other site 334390001300 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 334390001301 FAD binding domain; Region: FAD_binding_4; pfam01565 334390001302 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 334390001303 Uncharacterized conserved protein [Function unknown]; Region: COG1624 334390001304 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 334390001305 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 334390001306 YbbR-like protein; Region: YbbR; pfam07949 334390001307 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 334390001308 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 334390001309 active site 334390001310 substrate binding site [chemical binding]; other site 334390001311 metal binding site [ion binding]; metal-binding site 334390001312 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 334390001313 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 334390001314 glutaminase active site [active] 334390001315 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 334390001316 dimer interface [polypeptide binding]; other site 334390001317 active site 334390001318 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 334390001319 dimer interface [polypeptide binding]; other site 334390001320 active site 334390001321 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 334390001322 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 334390001323 active site 334390001324 motif I; other site 334390001325 motif II; other site 334390001326 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 334390001327 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 334390001328 Predicted membrane protein [Function unknown]; Region: COG2855 334390001329 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334390001330 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334390001331 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 334390001332 dimerization interface [polypeptide binding]; other site 334390001333 EDD domain protein, DegV family; Region: DegV; TIGR00762 334390001334 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 334390001335 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 334390001336 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 334390001337 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 334390001338 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 334390001339 active pocket/dimerization site; other site 334390001340 active site 334390001341 phosphorylation site [posttranslational modification] 334390001342 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 334390001343 active site 334390001344 phosphorylation site [posttranslational modification] 334390001345 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 334390001346 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 334390001347 Domain of unknown function (DUF956); Region: DUF956; cl01917 334390001348 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390001349 MULE transposase domain; Region: MULE; pfam10551 334390001350 putative transposase OrfB; Reviewed; Region: PHA02517 334390001351 HTH-like domain; Region: HTH_21; pfam13276 334390001352 Integrase core domain; Region: rve; pfam00665 334390001353 Integrase core domain; Region: rve_2; pfam13333 334390001354 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334390001355 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 334390001356 active site 334390001357 phosphorylation site [posttranslational modification] 334390001358 intermolecular recognition site; other site 334390001359 dimerization interface [polypeptide binding]; other site 334390001360 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 334390001361 DNA binding site [nucleotide binding] 334390001362 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334390001363 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 334390001364 dimerization interface [polypeptide binding]; other site 334390001365 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 334390001366 dimer interface [polypeptide binding]; other site 334390001367 phosphorylation site [posttranslational modification] 334390001368 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 334390001369 ATP binding site [chemical binding]; other site 334390001370 Mg2+ binding site [ion binding]; other site 334390001371 G-X-G motif; other site 334390001372 Sugar transport protein; Region: Sugar_transport; pfam06800 334390001373 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 334390001374 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 334390001375 nucleotide binding site [chemical binding]; other site 334390001376 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 334390001377 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 334390001378 putative substrate translocation pore; other site 334390001379 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 334390001380 xylose isomerase; Provisional; Region: PRK05474 334390001381 xylose isomerase; Region: xylose_isom_A; TIGR02630 334390001382 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 334390001383 N- and C-terminal domain interface [polypeptide binding]; other site 334390001384 D-xylulose kinase; Region: XylB; TIGR01312 334390001385 active site 334390001386 MgATP binding site [chemical binding]; other site 334390001387 catalytic site [active] 334390001388 metal binding site [ion binding]; metal-binding site 334390001389 xylulose binding site [chemical binding]; other site 334390001390 homodimer interface [polypeptide binding]; other site 334390001391 Cupin domain; Region: Cupin_2; pfam07883 334390001392 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 334390001393 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 334390001394 inhibitor binding site; inhibition site 334390001395 active site 334390001396 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334390001397 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 334390001398 putative substrate translocation pore; other site 334390001399 putative transposase OrfB; Reviewed; Region: PHA02517 334390001400 HTH-like domain; Region: HTH_21; pfam13276 334390001401 Integrase core domain; Region: rve; pfam00665 334390001402 Integrase core domain; Region: rve_2; pfam13333 334390001403 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 334390001404 Helix-turn-helix domain; Region: HTH_28; pfam13518 334390001405 Helix-turn-helix domain; Region: HTH_28; pfam13518 334390001406 peroxiredoxin; Region: AhpC; TIGR03137 334390001407 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 334390001408 dimer interface [polypeptide binding]; other site 334390001409 decamer (pentamer of dimers) interface [polypeptide binding]; other site 334390001410 catalytic triad [active] 334390001411 peroxidatic and resolving cysteines [active] 334390001412 putative alkyl hydroperoxide reductase F subunit; Region: AhpF_homolog; TIGR03143 334390001413 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 334390001414 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334390001415 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 334390001416 catalytic residue [active] 334390001417 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 334390001418 catalytic residues [active] 334390001419 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 334390001420 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 334390001421 active site 334390001422 dimer interface [polypeptide binding]; other site 334390001423 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 334390001424 dimer interface [polypeptide binding]; other site 334390001425 active site 334390001426 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 334390001427 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334390001428 Coenzyme A binding pocket [chemical binding]; other site 334390001429 Zinc-dependent metalloprotease, MMP_like subfamily. This group contains matrix metalloproteinases (MMPs), serralysins, and the astacin_like family of proteases; Region: ZnMc_MMP_like; cd04268 334390001430 active site 334390001431 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 334390001432 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 334390001433 active site 334390001434 catalytic tetrad [active] 334390001435 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 334390001436 triosephosphate isomerase; Provisional; Region: PRK14565 334390001437 substrate binding site [chemical binding]; other site 334390001438 dimer interface [polypeptide binding]; other site 334390001439 catalytic triad [active] 334390001440 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 334390001441 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334390001442 MarR family; Region: MarR_2; cl17246 334390001443 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334390001444 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334390001445 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334390001446 Walker A/P-loop; other site 334390001447 ATP binding site [chemical binding]; other site 334390001448 Q-loop/lid; other site 334390001449 ABC transporter signature motif; other site 334390001450 Walker B; other site 334390001451 D-loop; other site 334390001452 H-loop/switch region; other site 334390001453 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334390001454 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334390001455 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 334390001456 Walker A/P-loop; other site 334390001457 ATP binding site [chemical binding]; other site 334390001458 Q-loop/lid; other site 334390001459 ABC transporter signature motif; other site 334390001460 Walker B; other site 334390001461 D-loop; other site 334390001462 H-loop/switch region; other site 334390001463 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 334390001464 Beta-lactamase; Region: Beta-lactamase; pfam00144 334390001465 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 334390001466 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 334390001467 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 334390001468 putative active site [active] 334390001469 catalytic site [active] 334390001470 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 334390001471 putative active site [active] 334390001472 catalytic site [active] 334390001473 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 334390001474 catalytic triad [active] 334390001475 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 334390001476 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334390001477 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 334390001478 thymidine kinase; Provisional; Region: PRK04296 334390001479 peptide chain release factor 1; Validated; Region: prfA; PRK00591 334390001480 This domain is found in peptide chain release factors; Region: PCRF; smart00937 334390001481 RF-1 domain; Region: RF-1; pfam00472 334390001482 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 334390001483 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 334390001484 S-adenosylmethionine binding site [chemical binding]; other site 334390001485 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 334390001486 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 334390001487 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 334390001488 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 334390001489 dimer interface [polypeptide binding]; other site 334390001490 active site 334390001491 glycine-pyridoxal phosphate binding site [chemical binding]; other site 334390001492 folate binding site [chemical binding]; other site 334390001493 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334390001494 active site 334390001495 YibE/F-like protein; Region: YibE_F; pfam07907 334390001496 YibE/F-like protein; Region: YibE_F; cl02259 334390001497 uracil transporter; Provisional; Region: PRK10720 334390001498 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 334390001499 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 334390001500 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 334390001501 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 334390001502 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 334390001503 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 334390001504 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 334390001505 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 334390001506 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 334390001507 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 334390001508 beta subunit interaction interface [polypeptide binding]; other site 334390001509 Walker A motif; other site 334390001510 ATP binding site [chemical binding]; other site 334390001511 Walker B motif; other site 334390001512 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 334390001513 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 334390001514 core domain interface [polypeptide binding]; other site 334390001515 delta subunit interface [polypeptide binding]; other site 334390001516 epsilon subunit interface [polypeptide binding]; other site 334390001517 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 334390001518 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 334390001519 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 334390001520 alpha subunit interaction interface [polypeptide binding]; other site 334390001521 Walker A motif; other site 334390001522 ATP binding site [chemical binding]; other site 334390001523 Walker B motif; other site 334390001524 inhibitor binding site; inhibition site 334390001525 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 334390001526 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 334390001527 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 334390001528 gamma subunit interface [polypeptide binding]; other site 334390001529 epsilon subunit interface [polypeptide binding]; other site 334390001530 LBP interface [polypeptide binding]; other site 334390001531 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 334390001532 rod shape-determining protein MreB; Provisional; Region: PRK13930 334390001533 MreB and similar proteins; Region: MreB_like; cd10225 334390001534 nucleotide binding site [chemical binding]; other site 334390001535 Mg binding site [ion binding]; other site 334390001536 putative protofilament interaction site [polypeptide binding]; other site 334390001537 RodZ interaction site [polypeptide binding]; other site 334390001538 hypothetical protein; Validated; Region: PRK00041 334390001539 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 334390001540 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 334390001541 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 334390001542 lipoyl-biotinyl attachment site [posttranslational modification]; other site 334390001543 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 334390001544 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 334390001545 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 334390001546 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 334390001547 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334390001548 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 334390001549 non-specific DNA binding site [nucleotide binding]; other site 334390001550 salt bridge; other site 334390001551 sequence-specific DNA binding site [nucleotide binding]; other site 334390001552 Tetratricopeptide repeat; Region: TPR_12; pfam13424 334390001553 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 334390001554 binding surface 334390001555 TPR motif; other site 334390001556 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 334390001557 Ligand Binding Site [chemical binding]; other site 334390001558 recombination factor protein RarA; Reviewed; Region: PRK13342 334390001559 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 334390001560 Walker A motif; other site 334390001561 ATP binding site [chemical binding]; other site 334390001562 Walker B motif; other site 334390001563 arginine finger; other site 334390001564 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 334390001565 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 334390001566 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334390001567 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 334390001568 active site 334390001569 metal binding site [ion binding]; metal-binding site 334390001570 Uncharacterized conserved protein [Function unknown]; Region: COG1284 334390001571 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334390001572 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334390001573 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 334390001574 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 334390001575 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 334390001576 Int/Topo IB signature motif; other site 334390001577 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 334390001578 AAA domain; Region: AAA_24; pfam13479 334390001579 phage nucleotide-binding protein; Region: phage_P_loop; TIGR01618 334390001580 DEAD-like helicases superfamily; Region: DEXDc; smart00487 334390001581 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 334390001582 ATP binding site [chemical binding]; other site 334390001583 putative Mg++ binding site [ion binding]; other site 334390001584 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 334390001585 nucleotide binding region [chemical binding]; other site 334390001586 ATP-binding site [chemical binding]; other site 334390001587 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 334390001588 Protein of unknown function (DUF669); Region: DUF669; pfam05037 334390001589 Uncharacterized conserved protein [Function unknown]; Region: COG4983 334390001590 D5 N terminal like; Region: D5_N; pfam08706 334390001591 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 334390001592 VRR-NUC domain; Region: VRR_NUC; pfam08774 334390001593 Phage terminase, small subunit; Region: Terminase_4; pfam05119 334390001594 Phage Terminase; Region: Terminase_1; pfam03354 334390001595 Phage-related protein [Function unknown]; Region: COG4695; cl01923 334390001596 Phage portal protein; Region: Phage_portal; pfam04860 334390001597 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 334390001598 Phage capsid family; Region: Phage_capsid; pfam05065 334390001599 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 334390001600 Phage major tail protein; Region: Phage_tail; pfam04630 334390001601 Protein of unknown function (DUF1268); Region: DUF1268; pfam06896 334390001602 Phage-related tail protein [Function unknown]; Region: COG5283 334390001603 tape measure domain; Region: tape_meas_nterm; TIGR02675 334390001604 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 334390001605 N-acetyl-D-glucosamine binding site [chemical binding]; other site 334390001606 catalytic residue [active] 334390001607 Phage tail protein; Region: Sipho_tail; pfam05709 334390001608 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 334390001609 active site 334390001610 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 334390001611 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 334390001612 NlpC/P60 family; Region: NLPC_P60; cl17555 334390001613 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 334390001614 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 334390001615 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 334390001616 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 334390001617 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 334390001618 active site 334390001619 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 334390001620 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 334390001621 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 334390001622 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 334390001623 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 334390001624 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 334390001625 RNA binding surface [nucleotide binding]; other site 334390001626 septation ring formation regulator EzrA; Provisional; Region: PRK04778 334390001627 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 334390001628 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 334390001629 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334390001630 catalytic residue [active] 334390001631 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 334390001632 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 334390001633 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 334390001634 Ligand Binding Site [chemical binding]; other site 334390001635 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 334390001636 fructuronate transporter; Provisional; Region: PRK10034; cl15264 334390001637 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 334390001638 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390001639 Helix-turn-helix domain; Region: HTH_38; pfam13936 334390001640 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 334390001641 dimer interface [polypeptide binding]; other site 334390001642 catalytic triad [active] 334390001643 peroxidatic and resolving cysteines [active] 334390001644 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 334390001645 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 334390001646 active site 334390001647 HIGH motif; other site 334390001648 nucleotide binding site [chemical binding]; other site 334390001649 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 334390001650 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 334390001651 active site 334390001652 KMSKS motif; other site 334390001653 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 334390001654 tRNA binding surface [nucleotide binding]; other site 334390001655 anticodon binding site; other site 334390001656 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 334390001657 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 334390001658 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334390001659 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334390001660 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 334390001661 MPN+ (JAMM) motif; other site 334390001662 Zinc-binding site [ion binding]; other site 334390001663 rod shape-determining protein MreB; Provisional; Region: PRK13927 334390001664 MreB and similar proteins; Region: MreB_like; cd10225 334390001665 nucleotide binding site [chemical binding]; other site 334390001666 Mg binding site [ion binding]; other site 334390001667 putative protofilament interaction site [polypeptide binding]; other site 334390001668 RodZ interaction site [polypeptide binding]; other site 334390001669 rod shape-determining protein MreC; Provisional; Region: PRK13922 334390001670 rod shape-determining protein MreC; Region: MreC; pfam04085 334390001671 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 334390001672 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 334390001673 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 334390001674 dimer interface [polypeptide binding]; other site 334390001675 conserved gate region; other site 334390001676 putative PBP binding loops; other site 334390001677 ABC-ATPase subunit interface; other site 334390001678 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334390001679 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334390001680 Walker A/P-loop; other site 334390001681 ATP binding site [chemical binding]; other site 334390001682 Q-loop/lid; other site 334390001683 ABC transporter signature motif; other site 334390001684 Walker B; other site 334390001685 D-loop; other site 334390001686 H-loop/switch region; other site 334390001687 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 334390001688 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 334390001689 substrate binding pocket [chemical binding]; other site 334390001690 membrane-bound complex binding site; other site 334390001691 hinge residues; other site 334390001692 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 334390001693 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 334390001694 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 334390001695 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 334390001696 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 334390001697 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 334390001698 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 334390001699 non-specific DNA binding site [nucleotide binding]; other site 334390001700 salt bridge; other site 334390001701 sequence-specific DNA binding site [nucleotide binding]; other site 334390001702 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 334390001703 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 334390001704 competence damage-inducible protein A; Provisional; Region: PRK00549 334390001705 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 334390001706 putative MPT binding site; other site 334390001707 Competence-damaged protein; Region: CinA; pfam02464 334390001708 recombinase A; Provisional; Region: recA; PRK09354 334390001709 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 334390001710 hexamer interface [polypeptide binding]; other site 334390001711 Walker A motif; other site 334390001712 ATP binding site [chemical binding]; other site 334390001713 Walker B motif; other site 334390001714 phosphodiesterase; Provisional; Region: PRK12704 334390001715 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334390001716 Zn2+ binding site [ion binding]; other site 334390001717 Mg2+ binding site [ion binding]; other site 334390001718 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 334390001719 MutS domain I; Region: MutS_I; pfam01624 334390001720 MutS domain II; Region: MutS_II; pfam05188 334390001721 MutS domain III; Region: MutS_III; pfam05192 334390001722 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 334390001723 Walker A/P-loop; other site 334390001724 ATP binding site [chemical binding]; other site 334390001725 Q-loop/lid; other site 334390001726 ABC transporter signature motif; other site 334390001727 Walker B; other site 334390001728 D-loop; other site 334390001729 H-loop/switch region; other site 334390001730 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 334390001731 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 334390001732 ATP binding site [chemical binding]; other site 334390001733 Mg2+ binding site [ion binding]; other site 334390001734 G-X-G motif; other site 334390001735 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 334390001736 ATP binding site [chemical binding]; other site 334390001737 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 334390001738 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 334390001739 RuvA N terminal domain; Region: RuvA_N; pfam01330 334390001740 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 334390001741 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 334390001742 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 334390001743 Walker A motif; other site 334390001744 ATP binding site [chemical binding]; other site 334390001745 Walker B motif; other site 334390001746 arginine finger; other site 334390001747 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 334390001748 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 334390001749 Preprotein translocase subunit; Region: YajC; pfam02699 334390001750 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 334390001751 DHH family; Region: DHH; pfam01368 334390001752 DHHA1 domain; Region: DHHA1; pfam02272 334390001753 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 334390001754 DEAD-like helicases superfamily; Region: DEXDc; smart00487 334390001755 ATP binding site [chemical binding]; other site 334390001756 Mg++ binding site [ion binding]; other site 334390001757 motif III; other site 334390001758 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 334390001759 nucleotide binding region [chemical binding]; other site 334390001760 ATP-binding site [chemical binding]; other site 334390001761 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 334390001762 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 334390001763 motif 1; other site 334390001764 active site 334390001765 motif 2; other site 334390001766 motif 3; other site 334390001767 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 334390001768 DHHA1 domain; Region: DHHA1; pfam02272 334390001769 hypothetical protein; Provisional; Region: PRK05473 334390001770 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 334390001771 hypothetical protein; Provisional; Region: PRK13678 334390001772 ribonuclease HIII; Provisional; Region: PRK00996 334390001773 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 334390001774 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 334390001775 RNA/DNA hybrid binding site [nucleotide binding]; other site 334390001776 active site 334390001777 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 334390001778 MutS domain III; Region: MutS_III; pfam05192 334390001779 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334390001780 Walker A/P-loop; other site 334390001781 ATP binding site [chemical binding]; other site 334390001782 Q-loop/lid; other site 334390001783 ABC transporter signature motif; other site 334390001784 Walker B; other site 334390001785 D-loop; other site 334390001786 H-loop/switch region; other site 334390001787 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 334390001788 Smr domain; Region: Smr; pfam01713 334390001789 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 334390001790 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 334390001791 catalytic residues [active] 334390001792 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 334390001793 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 334390001794 putative ion selectivity filter; other site 334390001795 putative pore gating glutamate residue; other site 334390001796 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 334390001797 glutamate racemase; Provisional; Region: PRK00865 334390001798 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 334390001799 active site 334390001800 dimerization interface [polypeptide binding]; other site 334390001801 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 334390001802 active site 334390001803 metal binding site [ion binding]; metal-binding site 334390001804 homotetramer interface [polypeptide binding]; other site 334390001805 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 334390001806 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 334390001807 active site 334390001808 motif I; other site 334390001809 motif II; other site 334390001810 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 334390001811 Mechanosensitive ion channel; Region: MS_channel; pfam00924 334390001812 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 334390001813 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 334390001814 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 334390001815 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 334390001816 active site 334390001817 catabolite control protein A; Region: ccpA; TIGR01481 334390001818 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390001819 DNA binding site [nucleotide binding] 334390001820 domain linker motif; other site 334390001821 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 334390001822 dimerization interface [polypeptide binding]; other site 334390001823 effector binding site; other site 334390001824 hypothetical protein; Validated; Region: PRK00110 334390001825 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 334390001826 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 334390001827 NlpC/P60 family; Region: NLPC_P60; pfam00877 334390001828 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 334390001829 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 334390001830 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 334390001831 Type II/IV secretion system protein; Region: T2SE; pfam00437 334390001832 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 334390001833 Walker A motif; other site 334390001834 ATP binding site [chemical binding]; other site 334390001835 Walker B motif; other site 334390001836 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 334390001837 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 334390001838 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 334390001839 Methyltransferase domain; Region: Methyltransf_26; pfam13659 334390001840 S-adenosylmethionine binding site [chemical binding]; other site 334390001841 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 334390001842 propionate/acetate kinase; Provisional; Region: PRK12379 334390001843 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 334390001844 putative active site [active] 334390001845 putative metal binding site [ion binding]; other site 334390001846 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 334390001847 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 334390001848 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 334390001849 active site 334390001850 motif I; other site 334390001851 motif II; other site 334390001852 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 334390001853 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 334390001854 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 334390001855 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 334390001856 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 334390001857 ArsC family; Region: ArsC; pfam03960 334390001858 putative catalytic residues [active] 334390001859 thiol/disulfide switch; other site 334390001860 adaptor protein; Provisional; Region: PRK02315 334390001861 Competence protein CoiA-like family; Region: CoiA; cl11541 334390001862 Thioredoxin; Region: Thioredoxin_5; pfam13743 334390001863 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 334390001864 synthetase active site [active] 334390001865 NTP binding site [chemical binding]; other site 334390001866 metal binding site [ion binding]; metal-binding site 334390001867 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 334390001868 ATP-NAD kinase; Region: NAD_kinase; pfam01513 334390001869 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 334390001870 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 334390001871 active site 334390001872 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 334390001873 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 334390001874 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 334390001875 S-adenosylmethionine binding site [chemical binding]; other site 334390001876 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 334390001877 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 334390001878 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 334390001879 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 334390001880 cell division protein MraZ; Reviewed; Region: PRK00326 334390001881 MraZ protein; Region: MraZ; pfam02381 334390001882 MraZ protein; Region: MraZ; pfam02381 334390001883 MraW methylase family; Region: Methyltransf_5; pfam01795 334390001884 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 334390001885 Cell division protein FtsL; Region: FtsL; cl11433 334390001886 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 334390001887 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 334390001888 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 334390001889 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 334390001890 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 334390001891 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 334390001892 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 334390001893 Mg++ binding site [ion binding]; other site 334390001894 putative catalytic motif [active] 334390001895 putative substrate binding site [chemical binding]; other site 334390001896 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 334390001897 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 334390001898 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334390001899 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334390001900 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 334390001901 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 334390001902 active site 334390001903 homodimer interface [polypeptide binding]; other site 334390001904 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 334390001905 Cell division protein FtsQ; Region: FtsQ; pfam03799 334390001906 cell division protein FtsA; Region: ftsA; TIGR01174 334390001907 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 334390001908 nucleotide binding site [chemical binding]; other site 334390001909 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 334390001910 Cell division protein FtsA; Region: FtsA; pfam14450 334390001911 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 334390001912 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 334390001913 nucleotide binding site [chemical binding]; other site 334390001914 SulA interaction site; other site 334390001915 Protein of unknown function (DUF552); Region: DUF552; pfam04472 334390001916 YGGT family; Region: YGGT; pfam02325 334390001917 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 334390001918 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 334390001919 RNA binding surface [nucleotide binding]; other site 334390001920 DivIVA protein; Region: DivIVA; pfam05103 334390001921 DivIVA domain; Region: DivI1A_domain; TIGR03544 334390001922 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 334390001923 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 334390001924 active site 334390001925 HIGH motif; other site 334390001926 nucleotide binding site [chemical binding]; other site 334390001927 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 334390001928 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 334390001929 active site 334390001930 KMSKS motif; other site 334390001931 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 334390001932 tRNA binding surface [nucleotide binding]; other site 334390001933 anticodon binding site; other site 334390001934 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 334390001935 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 334390001936 DNA-binding site [nucleotide binding]; DNA binding site 334390001937 RNA-binding motif; other site 334390001938 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 334390001939 dimer interface [polypeptide binding]; other site 334390001940 ADP-ribose binding site [chemical binding]; other site 334390001941 active site 334390001942 nudix motif; other site 334390001943 metal binding site [ion binding]; metal-binding site 334390001944 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 334390001945 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 334390001946 Putative amino acid metabolism; Region: DUF1831; pfam08866 334390001947 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 334390001948 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 334390001949 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 334390001950 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 334390001951 active site 334390001952 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 334390001953 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 334390001954 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334390001955 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 334390001956 NAD binding site [chemical binding]; other site 334390001957 dimer interface [polypeptide binding]; other site 334390001958 substrate binding site [chemical binding]; other site 334390001959 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 334390001960 catalytic core [active] 334390001961 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 334390001962 TPR motif; other site 334390001963 Tetratricopeptide repeat; Region: TPR_12; pfam13424 334390001964 binding surface 334390001965 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 334390001966 binding surface 334390001967 TPR motif; other site 334390001968 TPR repeat; Region: TPR_11; pfam13414 334390001969 Tetratricopeptide repeat; Region: TPR_16; pfam13432 334390001970 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 334390001971 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 334390001972 AAA domain; Region: AAA_30; pfam13604 334390001973 Family description; Region: UvrD_C_2; pfam13538 334390001974 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 334390001975 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 334390001976 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334390001977 active site 334390001978 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 334390001979 ArsC family; Region: ArsC; pfam03960 334390001980 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 334390001981 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 334390001982 Protein of unknown function (DUF1447); Region: DUF1447; pfam07288 334390001983 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 334390001984 active site 334390001985 catalytic residues [active] 334390001986 metal binding site [ion binding]; metal-binding site 334390001987 Uncharacterized protein family (UPF0223); Region: UPF0223; pfam05256 334390001988 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 334390001989 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 334390001990 active site 334390001991 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 334390001992 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 334390001993 G1 box; other site 334390001994 putative GEF interaction site [polypeptide binding]; other site 334390001995 GTP/Mg2+ binding site [chemical binding]; other site 334390001996 Switch I region; other site 334390001997 G2 box; other site 334390001998 G3 box; other site 334390001999 Switch II region; other site 334390002000 G4 box; other site 334390002001 G5 box; other site 334390002002 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 334390002003 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 334390002004 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 334390002005 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; cl11453 334390002006 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 334390002007 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 334390002008 S-adenosylmethionine binding site [chemical binding]; other site 334390002009 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 334390002010 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 334390002011 active site 334390002012 (T/H)XGH motif; other site 334390002013 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 334390002014 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 334390002015 SLBB domain; Region: SLBB; pfam10531 334390002016 comEA protein; Region: comE; TIGR01259 334390002017 Helix-hairpin-helix motif; Region: HHH; pfam00633 334390002018 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 334390002019 catalytic motif [active] 334390002020 Zn binding site [ion binding]; other site 334390002021 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 334390002022 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 334390002023 Competence protein; Region: Competence; pfam03772 334390002024 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 334390002025 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334390002026 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 334390002027 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 334390002028 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390002029 Helix-turn-helix domain; Region: HTH_38; pfam13936 334390002030 Homeodomain-like domain; Region: HTH_32; pfam13565 334390002031 Integrase core domain; Region: rve; pfam00665 334390002032 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 334390002033 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 334390002034 16S/18S rRNA binding site [nucleotide binding]; other site 334390002035 S13e-L30e interaction site [polypeptide binding]; other site 334390002036 25S rRNA binding site [nucleotide binding]; other site 334390002037 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 334390002038 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 334390002039 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334390002040 elongation factor Tu; Reviewed; Region: PRK00049 334390002041 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 334390002042 G1 box; other site 334390002043 GEF interaction site [polypeptide binding]; other site 334390002044 GTP/Mg2+ binding site [chemical binding]; other site 334390002045 Switch I region; other site 334390002046 G2 box; other site 334390002047 G3 box; other site 334390002048 Switch II region; other site 334390002049 G4 box; other site 334390002050 G5 box; other site 334390002051 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 334390002052 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 334390002053 Antibiotic Binding Site [chemical binding]; other site 334390002054 trigger factor; Provisional; Region: tig; PRK01490 334390002055 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 334390002056 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 334390002057 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 334390002058 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 334390002059 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 334390002060 Walker A motif; other site 334390002061 ATP binding site [chemical binding]; other site 334390002062 Walker B motif; other site 334390002063 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 334390002064 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 334390002065 G1 box; other site 334390002066 GTP/Mg2+ binding site [chemical binding]; other site 334390002067 Switch I region; other site 334390002068 G2 box; other site 334390002069 G3 box; other site 334390002070 Switch II region; other site 334390002071 G4 box; other site 334390002072 G5 box; other site 334390002073 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 334390002074 putative metal binding site [ion binding]; other site 334390002075 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 334390002076 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 334390002077 Walker A/P-loop; other site 334390002078 ATP binding site [chemical binding]; other site 334390002079 Q-loop/lid; other site 334390002080 ABC transporter signature motif; other site 334390002081 Walker B; other site 334390002082 D-loop; other site 334390002083 H-loop/switch region; other site 334390002084 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 334390002085 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 334390002086 GIY-YIG motif/motif A; other site 334390002087 active site 334390002088 catalytic site [active] 334390002089 putative DNA binding site [nucleotide binding]; other site 334390002090 metal binding site [ion binding]; metal-binding site 334390002091 UvrB/uvrC motif; Region: UVR; pfam02151 334390002092 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 334390002093 GTPase CgtA; Reviewed; Region: obgE; PRK12297 334390002094 GTP1/OBG; Region: GTP1_OBG; pfam01018 334390002095 Obg GTPase; Region: Obg; cd01898 334390002096 G1 box; other site 334390002097 GTP/Mg2+ binding site [chemical binding]; other site 334390002098 Switch I region; other site 334390002099 G2 box; other site 334390002100 G3 box; other site 334390002101 Switch II region; other site 334390002102 G4 box; other site 334390002103 G5 box; other site 334390002104 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 334390002105 ribonuclease Z; Region: RNase_Z; TIGR02651 334390002106 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 334390002107 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390002108 NAD(P) binding site [chemical binding]; other site 334390002109 active site 334390002110 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 334390002111 DHH family; Region: DHH; pfam01368 334390002112 DHHA1 domain; Region: DHHA1; pfam02272 334390002113 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 334390002114 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334390002115 active site 334390002116 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 334390002117 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 334390002118 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 334390002119 homodimer interface [polypeptide binding]; other site 334390002120 ligand binding site [chemical binding]; other site 334390002121 NAD binding site [chemical binding]; other site 334390002122 catalytic site [active] 334390002123 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 334390002124 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 334390002125 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 334390002126 Uncharacterized conserved protein [Function unknown]; Region: COG1359 334390002127 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 334390002128 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 334390002129 dimer interface [polypeptide binding]; other site 334390002130 active site 334390002131 metal binding site [ion binding]; metal-binding site 334390002132 short chain dehydrogenase; Provisional; Region: PRK06940 334390002133 short chain dehydrogenase; Provisional; Region: PRK06940 334390002134 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390002135 NAD(P) binding site [chemical binding]; other site 334390002136 active site 334390002137 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 334390002138 active site 334390002139 substrate binding site [chemical binding]; other site 334390002140 trimer interface [polypeptide binding]; other site 334390002141 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 334390002142 CoA binding site [chemical binding]; other site 334390002143 preprotein translocase subunit SecA; Reviewed; Region: PRK13107 334390002144 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 334390002145 putative substrate translocation pore; other site 334390002146 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334390002147 asparagine synthetase B; Provisional; Region: asnB; PRK09431 334390002148 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 334390002149 active site 334390002150 dimer interface [polypeptide binding]; other site 334390002151 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 334390002152 Ligand Binding Site [chemical binding]; other site 334390002153 Molecular Tunnel; other site 334390002154 Transposase IS200 like; Region: Y1_Tnp; pfam01797 334390002155 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334390002156 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334390002157 Probable transposase; Region: OrfB_IS605; pfam01385 334390002158 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 334390002159 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 334390002160 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334390002161 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390002162 DNA binding site [nucleotide binding] 334390002163 domain linker motif; other site 334390002164 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 334390002165 dimerization interface [polypeptide binding]; other site 334390002166 ligand binding site [chemical binding]; other site 334390002167 sodium binding site [ion binding]; other site 334390002168 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 334390002169 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 334390002170 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 334390002171 Int/Topo IB signature motif; other site 334390002172 Ion channel; Region: Ion_trans_2; pfam07885 334390002173 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334390002174 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 334390002175 non-specific DNA binding site [nucleotide binding]; other site 334390002176 salt bridge; other site 334390002177 sequence-specific DNA binding site [nucleotide binding]; other site 334390002178 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 334390002179 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 334390002180 RecT family; Region: RecT; pfam03837 334390002181 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 334390002182 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 334390002183 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 334390002184 dimer interface [polypeptide binding]; other site 334390002185 ssDNA binding site [nucleotide binding]; other site 334390002186 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334390002187 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390002188 MULE transposase domain; Region: MULE; pfam10551 334390002189 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 334390002190 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 334390002191 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 334390002192 MucBP domain; Region: MucBP; pfam06458 334390002193 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 334390002194 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 334390002195 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 334390002196 catalytic residues [active] 334390002197 catalytic nucleophile [active] 334390002198 Presynaptic Site I dimer interface [polypeptide binding]; other site 334390002199 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 334390002200 Synaptic Flat tetramer interface [polypeptide binding]; other site 334390002201 Synaptic Site I dimer interface [polypeptide binding]; other site 334390002202 DNA binding site [nucleotide binding] 334390002203 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 334390002204 DNA-binding interface [nucleotide binding]; DNA binding site 334390002205 Helix-turn-helix domain; Region: HTH_38; pfam13936 334390002206 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390002207 Integrase core domain; Region: rve; pfam00665 334390002208 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390002209 MULE transposase domain; Region: MULE; pfam10551 334390002210 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390002211 MULE transposase domain; Region: MULE; pfam10551 334390002212 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390002213 MULE transposase domain; Region: MULE; pfam10551 334390002214 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334390002215 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334390002216 Walker A/P-loop; other site 334390002217 ATP binding site [chemical binding]; other site 334390002218 Q-loop/lid; other site 334390002219 ABC transporter signature motif; other site 334390002220 Walker B; other site 334390002221 D-loop; other site 334390002222 H-loop/switch region; other site 334390002223 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 334390002224 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 334390002225 Transposase; Region: HTH_Tnp_1; pfam01527 334390002226 HTH-like domain; Region: HTH_21; pfam13276 334390002227 DDE domain; Region: DDE_Tnp_IS240; pfam13610 334390002228 Integrase core domain; Region: rve; pfam00665 334390002229 Integrase core domain; Region: rve_3; pfam13683 334390002230 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 334390002231 Transposase; Region: DDE_Tnp_ISL3; pfam01610 334390002232 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 334390002233 Transposase; Region: DDE_Tnp_ISL3; pfam01610 334390002234 putative transposase OrfB; Reviewed; Region: PHA02517 334390002235 HTH-like domain; Region: HTH_21; pfam13276 334390002236 Integrase core domain; Region: rve; pfam00665 334390002237 Integrase core domain; Region: rve_3; pfam13683 334390002238 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390002239 MULE transposase domain; Region: MULE; pfam10551 334390002240 putative transposase OrfB; Reviewed; Region: PHA02517 334390002241 HTH-like domain; Region: HTH_21; pfam13276 334390002242 Integrase core domain; Region: rve; pfam00665 334390002243 Integrase core domain; Region: rve_3; pfam13683 334390002244 helicase Cas3; Provisional; Region: PRK09694 334390002245 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 334390002246 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 334390002247 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390002248 MULE transposase domain; Region: MULE; pfam10551 334390002249 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cl08044 334390002250 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 334390002251 CT1975-like protein; Region: Cas_CT1975; pfam09344 334390002252 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 334390002253 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 334390002254 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 334390002255 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 334390002256 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390002257 Helix-turn-helix domain; Region: HTH_38; pfam13936 334390002258 Integrase core domain; Region: rve; pfam00665 334390002259 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390002260 MULE transposase domain; Region: MULE; pfam10551 334390002261 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390002262 MULE transposase domain; Region: MULE; pfam10551 334390002263 Integrase core domain; Region: rve; pfam00665 334390002264 Domain of unknown function (DUF389); Region: DUF389; pfam04087 334390002265 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 334390002266 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 334390002267 Integrase core domain; Region: rve; pfam00665 334390002268 "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 334390002269 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 334390002270 dimer interface [polypeptide binding]; other site 334390002271 active site 334390002272 LexA repressor; Validated; Region: PRK00215 334390002273 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 334390002274 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 334390002275 Catalytic site [active] 334390002276 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 334390002277 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 334390002278 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 334390002279 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 334390002280 putative acyl-acceptor binding pocket; other site 334390002281 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 334390002282 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 334390002283 S-adenosylmethionine binding site [chemical binding]; other site 334390002284 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 334390002285 GIY-YIG motif/motif A; other site 334390002286 putative active site [active] 334390002287 putative metal binding site [ion binding]; other site 334390002288 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 334390002289 rRNA interaction site [nucleotide binding]; other site 334390002290 S8 interaction site; other site 334390002291 putative laminin-1 binding site; other site 334390002292 elongation factor Ts; Provisional; Region: tsf; PRK09377 334390002293 UBA/TS-N domain; Region: UBA; pfam00627 334390002294 Elongation factor TS; Region: EF_TS; pfam00889 334390002295 Elongation factor TS; Region: EF_TS; pfam00889 334390002296 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 334390002297 putative nucleotide binding site [chemical binding]; other site 334390002298 uridine monophosphate binding site [chemical binding]; other site 334390002299 homohexameric interface [polypeptide binding]; other site 334390002300 ribosome recycling factor; Reviewed; Region: frr; PRK00083 334390002301 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 334390002302 hinge region; other site 334390002303 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14830 334390002304 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 334390002305 catalytic residue [active] 334390002306 putative FPP diphosphate binding site; other site 334390002307 putative FPP binding hydrophobic cleft; other site 334390002308 dimer interface [polypeptide binding]; other site 334390002309 putative IPP diphosphate binding site; other site 334390002310 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 334390002311 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 334390002312 RIP metalloprotease RseP; Region: TIGR00054 334390002313 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 334390002314 active site 334390002315 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 334390002316 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 334390002317 protein binding site [polypeptide binding]; other site 334390002318 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 334390002319 putative substrate binding region [chemical binding]; other site 334390002320 prolyl-tRNA synthetase; Provisional; Region: PRK09194 334390002321 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 334390002322 dimer interface [polypeptide binding]; other site 334390002323 motif 1; other site 334390002324 active site 334390002325 motif 2; other site 334390002326 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 334390002327 putative deacylase active site [active] 334390002328 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 334390002329 active site 334390002330 motif 3; other site 334390002331 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 334390002332 anticodon binding site; other site 334390002333 DNA polymerase III PolC; Validated; Region: polC; PRK00448 334390002334 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 334390002335 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 334390002336 generic binding surface II; other site 334390002337 generic binding surface I; other site 334390002338 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 334390002339 active site 334390002340 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 334390002341 active site 334390002342 catalytic site [active] 334390002343 substrate binding site [chemical binding]; other site 334390002344 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 334390002345 acetylornithine aminotransferase; Provisional; Region: argD; PRK02936 334390002346 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 334390002347 inhibitor-cofactor binding pocket; inhibition site 334390002348 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390002349 catalytic residue [active] 334390002350 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 334390002351 nucleotide binding site [chemical binding]; other site 334390002352 N-acetyl-L-glutamate binding site [chemical binding]; other site 334390002353 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 334390002354 heterotetramer interface [polypeptide binding]; other site 334390002355 active site pocket [active] 334390002356 cleavage site 334390002357 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 334390002358 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 334390002359 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 334390002360 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 334390002361 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 334390002362 catalytic site [active] 334390002363 subunit interface [polypeptide binding]; other site 334390002364 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 334390002365 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 334390002366 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 334390002367 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 334390002368 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 334390002369 ATP-grasp domain; Region: ATP-grasp_4; cl17255 334390002370 Sm and related proteins; Region: Sm_like; cl00259 334390002371 ribosome maturation protein RimP; Reviewed; Region: PRK00092 334390002372 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 334390002373 putative oligomer interface [polypeptide binding]; other site 334390002374 putative RNA binding site [nucleotide binding]; other site 334390002375 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 334390002376 NusA N-terminal domain; Region: NusA_N; pfam08529 334390002377 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 334390002378 RNA binding site [nucleotide binding]; other site 334390002379 homodimer interface [polypeptide binding]; other site 334390002380 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 334390002381 G-X-X-G motif; other site 334390002382 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 334390002383 G-X-X-G motif; other site 334390002384 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 334390002385 putative RNA binding cleft [nucleotide binding]; other site 334390002386 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 334390002387 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 334390002388 translation initiation factor IF-2; Region: IF-2; TIGR00487 334390002389 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 334390002390 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 334390002391 G1 box; other site 334390002392 putative GEF interaction site [polypeptide binding]; other site 334390002393 GTP/Mg2+ binding site [chemical binding]; other site 334390002394 Switch I region; other site 334390002395 G2 box; other site 334390002396 G3 box; other site 334390002397 Switch II region; other site 334390002398 G4 box; other site 334390002399 G5 box; other site 334390002400 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 334390002401 Translation-initiation factor 2; Region: IF-2; pfam11987 334390002402 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 334390002403 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 334390002404 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 334390002405 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 334390002406 RNA binding site [nucleotide binding]; other site 334390002407 active site 334390002408 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 334390002409 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 334390002410 active site 334390002411 Riboflavin kinase; Region: Flavokinase; smart00904 334390002412 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 334390002413 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334390002414 putative substrate translocation pore; other site 334390002415 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334390002416 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 334390002417 putative substrate translocation pore; other site 334390002418 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 334390002419 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 334390002420 Ca binding site [ion binding]; other site 334390002421 active site 334390002422 catalytic site [active] 334390002423 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 334390002424 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334390002425 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390002426 DNA binding site [nucleotide binding] 334390002427 domain linker motif; other site 334390002428 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 334390002429 dimerization interface [polypeptide binding]; other site 334390002430 ligand binding site [chemical binding]; other site 334390002431 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 334390002432 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 334390002433 dimer interface [polypeptide binding]; other site 334390002434 active site 334390002435 metal binding site [ion binding]; metal-binding site 334390002436 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 334390002437 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 334390002438 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 334390002439 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 334390002440 D-serine dehydratase; Provisional; Region: PRK02991 334390002441 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 334390002442 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334390002443 catalytic residue [active] 334390002444 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 334390002445 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 334390002446 Transposase; Region: HTH_Tnp_1; cl17663 334390002447 putative transposase OrfB; Reviewed; Region: PHA02517 334390002448 HTH-like domain; Region: HTH_21; pfam13276 334390002449 Integrase core domain; Region: rve; pfam00665 334390002450 Integrase core domain; Region: rve_3; pfam13683 334390002451 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 334390002452 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 334390002453 GrpE; Region: GrpE; pfam01025 334390002454 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 334390002455 dimer interface [polypeptide binding]; other site 334390002456 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 334390002457 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 334390002458 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 334390002459 nucleotide binding site [chemical binding]; other site 334390002460 NEF interaction site [polypeptide binding]; other site 334390002461 SBD interface [polypeptide binding]; other site 334390002462 chaperone protein DnaJ; Provisional; Region: PRK14276 334390002463 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 334390002464 HSP70 interaction site [polypeptide binding]; other site 334390002465 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 334390002466 substrate binding site [polypeptide binding]; other site 334390002467 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 334390002468 Zn binding sites [ion binding]; other site 334390002469 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 334390002470 dimer interface [polypeptide binding]; other site 334390002471 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 334390002472 conserved cys residue [active] 334390002473 histidinol-phosphatase; Reviewed; Region: PRK08123 334390002474 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 334390002475 active site 334390002476 dimer interface [polypeptide binding]; other site 334390002477 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 334390002478 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 334390002479 dimer interface [polypeptide binding]; other site 334390002480 motif 1; other site 334390002481 active site 334390002482 motif 2; other site 334390002483 motif 3; other site 334390002484 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 334390002485 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 334390002486 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 334390002487 histidinol dehydrogenase; Region: hisD; TIGR00069 334390002488 NAD binding site [chemical binding]; other site 334390002489 dimerization interface [polypeptide binding]; other site 334390002490 product binding site; other site 334390002491 substrate binding site [chemical binding]; other site 334390002492 zinc binding site [ion binding]; other site 334390002493 catalytic residues [active] 334390002494 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 334390002495 putative active site pocket [active] 334390002496 4-fold oligomerization interface [polypeptide binding]; other site 334390002497 metal binding residues [ion binding]; metal-binding site 334390002498 3-fold/trimer interface [polypeptide binding]; other site 334390002499 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 334390002500 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 334390002501 putative active site [active] 334390002502 oxyanion strand; other site 334390002503 catalytic triad [active] 334390002504 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 334390002505 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 334390002506 catalytic residues [active] 334390002507 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 334390002508 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 334390002509 substrate binding site [chemical binding]; other site 334390002510 glutamase interaction surface [polypeptide binding]; other site 334390002511 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; pfam01502 334390002512 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 334390002513 metal binding site [ion binding]; metal-binding site 334390002514 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 334390002515 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 334390002516 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390002517 homodimer interface [polypeptide binding]; other site 334390002518 catalytic residue [active] 334390002519 GTP-binding protein LepA; Provisional; Region: PRK05433 334390002520 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 334390002521 G1 box; other site 334390002522 putative GEF interaction site [polypeptide binding]; other site 334390002523 GTP/Mg2+ binding site [chemical binding]; other site 334390002524 Switch I region; other site 334390002525 G2 box; other site 334390002526 G3 box; other site 334390002527 Switch II region; other site 334390002528 G4 box; other site 334390002529 G5 box; other site 334390002530 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 334390002531 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 334390002532 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 334390002533 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 334390002534 catalytic core [active] 334390002535 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 334390002536 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334390002537 catalytic residue [active] 334390002538 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 334390002539 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 334390002540 putative ligand binding site [chemical binding]; other site 334390002541 putative NAD binding site [chemical binding]; other site 334390002542 putative catalytic site [active] 334390002543 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 334390002544 L-serine binding site [chemical binding]; other site 334390002545 ACT domain interface; other site 334390002546 Predicted transcriptional regulator [Transcription]; Region: COG1959 334390002547 Transcriptional regulator; Region: Rrf2; pfam02082 334390002548 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 334390002549 homopentamer interface [polypeptide binding]; other site 334390002550 active site 334390002551 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 334390002552 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 334390002553 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 334390002554 dimerization interface [polypeptide binding]; other site 334390002555 active site 334390002556 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 334390002557 Lumazine binding domain; Region: Lum_binding; pfam00677 334390002558 Lumazine binding domain; Region: Lum_binding; pfam00677 334390002559 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 334390002560 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 334390002561 catalytic motif [active] 334390002562 Zn binding site [ion binding]; other site 334390002563 RibD C-terminal domain; Region: RibD_C; cl17279 334390002564 HTH-like domain; Region: HTH_21; pfam13276 334390002565 Integrase core domain; Region: rve; pfam00665 334390002566 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 334390002567 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 334390002568 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; cl00162 334390002569 HPr interaction site; other site 334390002570 glycerol kinase (GK) interaction site [polypeptide binding]; other site 334390002571 active site 334390002572 phosphorylation site [posttranslational modification] 334390002573 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 334390002574 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 334390002575 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 334390002576 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 334390002577 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 334390002578 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390002579 DNA binding site [nucleotide binding] 334390002580 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 334390002581 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 334390002582 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 334390002583 dimerization interface [polypeptide binding]; other site 334390002584 DPS ferroxidase diiron center [ion binding]; other site 334390002585 ion pore; other site 334390002586 HTH-like domain; Region: HTH_21; pfam13276 334390002587 Integrase core domain; Region: rve; pfam00665 334390002588 Integrase core domain; Region: rve_3; cl15866 334390002589 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390002590 Helix-turn-helix domain; Region: HTH_38; pfam13936 334390002591 Homeodomain-like domain; Region: HTH_32; pfam13565 334390002592 Integrase core domain; Region: rve; pfam00665 334390002593 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 334390002594 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 334390002595 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334390002596 catalytic residue [active] 334390002597 Transposase IS200 like; Region: Y1_Tnp; pfam01797 334390002598 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334390002599 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334390002600 Probable transposase; Region: OrfB_IS605; pfam01385 334390002601 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 334390002602 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 334390002603 Peptidase family M20/M25/M40; Region: Peptidase_M20; pfam01546 334390002604 metal binding site [ion binding]; metal-binding site 334390002605 dimer interface [polypeptide binding]; other site 334390002606 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 334390002607 Cadmium resistance transporter; Region: Cad; pfam03596 334390002608 Protein of unknown function (DUF554); Region: DUF554; pfam04474 334390002609 methionine sulfoxide reductase A; Provisional; Region: PRK14054 334390002610 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 334390002611 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 334390002612 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 334390002613 methionine sulfoxide reductase A; Provisional; Region: PRK14054 334390002614 Pirin-related protein [General function prediction only]; Region: COG1741 334390002615 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 334390002616 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 334390002617 catalytic Zn binding site [ion binding]; other site 334390002618 NAD binding site [chemical binding]; other site 334390002619 structural Zn binding site [ion binding]; other site 334390002620 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 334390002621 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 334390002622 dimer interface [polypeptide binding]; other site 334390002623 substrate binding site [chemical binding]; other site 334390002624 ATP binding site [chemical binding]; other site 334390002625 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 334390002626 thiamine phosphate binding site [chemical binding]; other site 334390002627 active site 334390002628 pyrophosphate binding site [ion binding]; other site 334390002629 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 334390002630 dimer interface [polypeptide binding]; other site 334390002631 substrate binding site [chemical binding]; other site 334390002632 ATP binding site [chemical binding]; other site 334390002633 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 334390002634 substrate binding site [chemical binding]; other site 334390002635 multimerization interface [polypeptide binding]; other site 334390002636 ATP binding site [chemical binding]; other site 334390002637 conserved hypothetical integral membrane protein; Region: TIGR03766 334390002638 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 334390002639 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 334390002640 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334390002641 NAD binding site [chemical binding]; other site 334390002642 dimer interface [polypeptide binding]; other site 334390002643 substrate binding site [chemical binding]; other site 334390002644 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 334390002645 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 334390002646 S-adenosylmethionine binding site [chemical binding]; other site 334390002647 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 334390002648 RNA methyltransferase, RsmE family; Region: TIGR00046 334390002649 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 334390002650 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334390002651 Zn2+ binding site [ion binding]; other site 334390002652 Mg2+ binding site [ion binding]; other site 334390002653 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 334390002654 synthetase active site [active] 334390002655 NTP binding site [chemical binding]; other site 334390002656 metal binding site [ion binding]; metal-binding site 334390002657 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 334390002658 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 334390002659 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 334390002660 putative active site [active] 334390002661 dimerization interface [polypeptide binding]; other site 334390002662 putative tRNAtyr binding site [nucleotide binding]; other site 334390002663 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334390002664 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 334390002665 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 334390002666 homodimer interface [polypeptide binding]; other site 334390002667 substrate-cofactor binding pocket; other site 334390002668 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390002669 catalytic residue [active] 334390002670 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 334390002671 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 334390002672 homodimer interface [polypeptide binding]; other site 334390002673 substrate-cofactor binding pocket; other site 334390002674 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390002675 catalytic residue [active] 334390002676 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 334390002677 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 334390002678 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 334390002679 Walker A/P-loop; other site 334390002680 ATP binding site [chemical binding]; other site 334390002681 Q-loop/lid; other site 334390002682 ABC transporter signature motif; other site 334390002683 Walker B; other site 334390002684 D-loop; other site 334390002685 H-loop/switch region; other site 334390002686 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 334390002687 dimer interface [polypeptide binding]; other site 334390002688 conserved gate region; other site 334390002689 putative PBP binding loops; other site 334390002690 ABC-ATPase subunit interface; other site 334390002691 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 334390002692 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 334390002693 substrate binding pocket [chemical binding]; other site 334390002694 membrane-bound complex binding site; other site 334390002695 hinge residues; other site 334390002696 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 334390002697 dimer interface [polypeptide binding]; other site 334390002698 conserved gate region; other site 334390002699 putative PBP binding loops; other site 334390002700 ABC-ATPase subunit interface; other site 334390002701 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 334390002702 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 334390002703 dimer interface [polypeptide binding]; other site 334390002704 conserved gate region; other site 334390002705 putative PBP binding loops; other site 334390002706 ABC-ATPase subunit interface; other site 334390002707 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 334390002708 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 334390002709 Walker A/P-loop; other site 334390002710 ATP binding site [chemical binding]; other site 334390002711 Q-loop/lid; other site 334390002712 ABC transporter signature motif; other site 334390002713 Walker B; other site 334390002714 D-loop; other site 334390002715 H-loop/switch region; other site 334390002716 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 334390002717 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 334390002718 substrate binding pocket [chemical binding]; other site 334390002719 membrane-bound complex binding site; other site 334390002720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390002721 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 334390002722 NAD(P) binding site [chemical binding]; other site 334390002723 active site 334390002724 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 334390002725 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 334390002726 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 334390002727 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 334390002728 conserved cys residue [active] 334390002729 S-methylmethionine transporter; Provisional; Region: PRK11387 334390002730 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 334390002731 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 334390002732 Phosphotransferase enzyme family; Region: APH; pfam01636 334390002733 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 334390002734 active site 334390002735 substrate binding site [chemical binding]; other site 334390002736 ATP binding site [chemical binding]; other site 334390002737 Ecdysteroid kinase; Region: EcKinase; cl17738 334390002738 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 334390002739 substrate binding site [chemical binding]; other site 334390002740 Bacterial SH3 domain; Region: SH3_3; cl17532 334390002741 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 334390002742 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 334390002743 active site 334390002744 metal binding site [ion binding]; metal-binding site 334390002745 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 334390002746 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 334390002747 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 334390002748 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 334390002749 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 334390002750 dimer interface [polypeptide binding]; other site 334390002751 motif 1; other site 334390002752 active site 334390002753 motif 2; other site 334390002754 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 334390002755 anticodon binding site; other site 334390002756 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 334390002757 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 334390002758 dimer interface [polypeptide binding]; other site 334390002759 anticodon binding site; other site 334390002760 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 334390002761 homodimer interface [polypeptide binding]; other site 334390002762 motif 1; other site 334390002763 active site 334390002764 motif 2; other site 334390002765 GAD domain; Region: GAD; pfam02938 334390002766 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 334390002767 active site 334390002768 motif 3; other site 334390002769 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 334390002770 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 334390002771 catalytic triad [active] 334390002772 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 334390002773 Yqey-like protein; Region: YqeY; pfam09424 334390002774 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 334390002775 PhoH-like protein; Region: PhoH; pfam02562 334390002776 metal-binding heat shock protein; Provisional; Region: PRK00016 334390002777 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 334390002778 GTPase Era; Reviewed; Region: era; PRK00089 334390002779 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 334390002780 G1 box; other site 334390002781 GTP/Mg2+ binding site [chemical binding]; other site 334390002782 Switch I region; other site 334390002783 G2 box; other site 334390002784 Switch II region; other site 334390002785 G3 box; other site 334390002786 G4 box; other site 334390002787 G5 box; other site 334390002788 Recombination protein O N terminal; Region: RecO_N; pfam11967 334390002789 DNA repair protein RecO; Region: reco; TIGR00613 334390002790 Recombination protein O C terminal; Region: RecO_C; pfam02565 334390002791 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 334390002792 dimer interface [polypeptide binding]; other site 334390002793 motif 1; other site 334390002794 active site 334390002795 motif 2; other site 334390002796 motif 3; other site 334390002797 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 334390002798 DALR anticodon binding domain; Region: DALR_1; pfam05746 334390002799 DNA primase; Validated; Region: dnaG; PRK05667 334390002800 CHC2 zinc finger; Region: zf-CHC2; pfam01807 334390002801 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 334390002802 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 334390002803 active site 334390002804 metal binding site [ion binding]; metal-binding site 334390002805 interdomain interaction site; other site 334390002806 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 334390002807 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 334390002808 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 334390002809 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334390002810 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 334390002811 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 334390002812 DNA binding residues [nucleotide binding] 334390002813 putative transposase OrfB; Reviewed; Region: PHA02517 334390002814 HTH-like domain; Region: HTH_21; pfam13276 334390002815 Integrase core domain; Region: rve; pfam00665 334390002816 Integrase core domain; Region: rve_3; pfam13683 334390002817 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 334390002818 Transposase; Region: HTH_Tnp_1; pfam01527 334390002819 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 334390002820 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 334390002821 Transposase; Region: DDE_Tnp_ISL3; pfam01610 334390002822 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 334390002823 ApbE family; Region: ApbE; pfam02424 334390002824 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 334390002825 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 334390002826 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 334390002827 aspartate kinase; Reviewed; Region: PRK09034 334390002828 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 334390002829 putative catalytic residues [active] 334390002830 putative nucleotide binding site [chemical binding]; other site 334390002831 putative aspartate binding site [chemical binding]; other site 334390002832 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 334390002833 allosteric regulatory residue; other site 334390002834 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 334390002835 diaminopimelate decarboxylase; Region: lysA; TIGR01048 334390002836 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 334390002837 active site 334390002838 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 334390002839 substrate binding site [chemical binding]; other site 334390002840 catalytic residues [active] 334390002841 dimer interface [polypeptide binding]; other site 334390002842 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 334390002843 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 334390002844 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 334390002845 active site 334390002846 trimer interface [polypeptide binding]; other site 334390002847 substrate binding site [chemical binding]; other site 334390002848 CoA binding site [chemical binding]; other site 334390002849 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 334390002850 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 334390002851 metal binding site [ion binding]; metal-binding site 334390002852 putative dimer interface [polypeptide binding]; other site 334390002853 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 334390002854 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 334390002855 dimer interface [polypeptide binding]; other site 334390002856 active site 334390002857 catalytic residue [active] 334390002858 dihydrodipicolinate reductase; Provisional; Region: PRK00048 334390002859 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 334390002860 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 334390002861 aromatic amino acid aminotransferase; Validated; Region: PRK07309 334390002862 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 334390002863 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390002864 homodimer interface [polypeptide binding]; other site 334390002865 catalytic residue [active] 334390002866 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 334390002867 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 334390002868 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 334390002869 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 334390002870 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 334390002871 TrkA-N domain; Region: TrkA_N; pfam02254 334390002872 TrkA-C domain; Region: TrkA_C; pfam02080 334390002873 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 334390002874 Family of unknown function (DUF633); Region: DUF633; pfam04816 334390002875 Uncharacterized conserved protein [Function unknown]; Region: COG0327 334390002876 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 334390002877 peptidase T; Region: peptidase-T; TIGR01882 334390002878 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 334390002879 metal binding site [ion binding]; metal-binding site 334390002880 dimer interface [polypeptide binding]; other site 334390002881 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 334390002882 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 334390002883 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 334390002884 active site 334390002885 PHP Thumb interface [polypeptide binding]; other site 334390002886 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 334390002887 generic binding surface I; other site 334390002888 generic binding surface II; other site 334390002889 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 334390002890 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 334390002891 domain interfaces; other site 334390002892 active site 334390002893 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 334390002894 S1 domain; Region: S1_2; pfam13509 334390002895 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 334390002896 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 334390002897 active site 334390002898 DNA binding site [nucleotide binding] 334390002899 Int/Topo IB signature motif; other site 334390002900 ScpA/B protein; Region: ScpA_ScpB; cl00598 334390002901 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 334390002902 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 334390002903 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 334390002904 RNA binding surface [nucleotide binding]; other site 334390002905 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 334390002906 active site 334390002907 Predicted membrane protein [Function unknown]; Region: COG3601 334390002908 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 334390002909 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 334390002910 DEAD-like helicases superfamily; Region: DEXDc; smart00487 334390002911 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 334390002912 ATP binding site [chemical binding]; other site 334390002913 putative Mg++ binding site [ion binding]; other site 334390002914 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 334390002915 nucleotide binding region [chemical binding]; other site 334390002916 ATP-binding site [chemical binding]; other site 334390002917 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 334390002918 cytidylate kinase; Provisional; Region: cmk; PRK00023 334390002919 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 334390002920 CMP-binding site; other site 334390002921 The sites determining sugar specificity; other site 334390002922 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 334390002923 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 334390002924 RNA binding site [nucleotide binding]; other site 334390002925 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 334390002926 RNA binding site [nucleotide binding]; other site 334390002927 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 334390002928 RNA binding site [nucleotide binding]; other site 334390002929 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 334390002930 RNA binding site [nucleotide binding]; other site 334390002931 GTP-binding protein Der; Reviewed; Region: PRK00093 334390002932 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 334390002933 G1 box; other site 334390002934 GTP/Mg2+ binding site [chemical binding]; other site 334390002935 Switch I region; other site 334390002936 G2 box; other site 334390002937 Switch II region; other site 334390002938 G3 box; other site 334390002939 G4 box; other site 334390002940 G5 box; other site 334390002941 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 334390002942 G1 box; other site 334390002943 GTP/Mg2+ binding site [chemical binding]; other site 334390002944 Switch I region; other site 334390002945 G2 box; other site 334390002946 G3 box; other site 334390002947 Switch II region; other site 334390002948 G4 box; other site 334390002949 G5 box; other site 334390002950 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 334390002951 IHF dimer interface [polypeptide binding]; other site 334390002952 IHF - DNA interface [nucleotide binding]; other site 334390002953 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 334390002954 TPR motif; other site 334390002955 binding surface 334390002956 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 334390002957 TPR motif; other site 334390002958 binding surface 334390002959 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 334390002960 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 334390002961 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 334390002962 active site 334390002963 NTP binding site [chemical binding]; other site 334390002964 metal binding triad [ion binding]; metal-binding site 334390002965 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 334390002966 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 334390002967 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 334390002968 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334390002969 Walker A/P-loop; other site 334390002970 ATP binding site [chemical binding]; other site 334390002971 Q-loop/lid; other site 334390002972 ABC transporter signature motif; other site 334390002973 Walker B; other site 334390002974 D-loop; other site 334390002975 H-loop/switch region; other site 334390002976 ABC transporter; Region: ABC_tran_2; pfam12848 334390002977 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334390002978 thymidylate synthase; Region: thym_sym; TIGR03284 334390002979 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 334390002980 dimerization interface [polypeptide binding]; other site 334390002981 active site 334390002982 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 334390002983 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 334390002984 folate binding site [chemical binding]; other site 334390002985 NADP+ binding site [chemical binding]; other site 334390002986 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 334390002987 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 334390002988 EDD domain protein, DegV family; Region: DegV; TIGR00762 334390002989 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 334390002990 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 334390002991 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 334390002992 putative ligand binding site [chemical binding]; other site 334390002993 putative NAD binding site [chemical binding]; other site 334390002994 putative catalytic site [active] 334390002995 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 334390002996 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 334390002997 trimer interface [polypeptide binding]; other site 334390002998 active site 334390002999 substrate binding site [chemical binding]; other site 334390003000 CoA binding site [chemical binding]; other site 334390003001 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 334390003002 active site 334390003003 catalytic triad [active] 334390003004 oxyanion hole [active] 334390003005 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; pfam09911 334390003006 hypothetical protein; Provisional; Region: PRK13672 334390003007 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 334390003008 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 334390003009 GTP/Mg2+ binding site [chemical binding]; other site 334390003010 G4 box; other site 334390003011 G5 box; other site 334390003012 G1 box; other site 334390003013 Switch I region; other site 334390003014 G2 box; other site 334390003015 G3 box; other site 334390003016 Switch II region; other site 334390003017 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 334390003018 RNA/DNA hybrid binding site [nucleotide binding]; other site 334390003019 active site 334390003020 DNA protecting protein DprA; Region: dprA; TIGR00732 334390003021 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 334390003022 DNA topoisomerase I; Validated; Region: PRK05582 334390003023 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 334390003024 active site 334390003025 interdomain interaction site; other site 334390003026 putative metal-binding site [ion binding]; other site 334390003027 nucleotide binding site [chemical binding]; other site 334390003028 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 334390003029 domain I; other site 334390003030 DNA binding groove [nucleotide binding] 334390003031 phosphate binding site [ion binding]; other site 334390003032 domain II; other site 334390003033 domain III; other site 334390003034 nucleotide binding site [chemical binding]; other site 334390003035 catalytic site [active] 334390003036 domain IV; other site 334390003037 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 334390003038 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 334390003039 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 334390003040 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 334390003041 active site 334390003042 DNA binding site [nucleotide binding] 334390003043 Int/Topo IB signature motif; other site 334390003044 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 334390003045 active site 334390003046 catalytic residues [active] 334390003047 membrane protein; Provisional; Region: PRK14392 334390003048 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 334390003049 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 334390003050 ATP binding site [chemical binding]; other site 334390003051 Mg2+ binding site [ion binding]; other site 334390003052 G-X-G motif; other site 334390003053 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 334390003054 anchoring element; other site 334390003055 dimer interface [polypeptide binding]; other site 334390003056 ATP binding site [chemical binding]; other site 334390003057 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 334390003058 active site 334390003059 putative metal-binding site [ion binding]; other site 334390003060 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 334390003061 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 334390003062 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 334390003063 CAP-like domain; other site 334390003064 active site 334390003065 primary dimer interface [polypeptide binding]; other site 334390003066 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334390003067 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 334390003068 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 334390003069 DHH family; Region: DHH; pfam01368 334390003070 DHHA2 domain; Region: DHHA2; pfam02833 334390003071 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 334390003072 methionine sulfoxide reductase B; Provisional; Region: PRK00222 334390003073 SelR domain; Region: SelR; pfam01641 334390003074 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 334390003075 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334390003076 Coenzyme A binding pocket [chemical binding]; other site 334390003077 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 334390003078 GAF domain; Region: GAF_2; pfam13185 334390003079 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 334390003080 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 334390003081 Na binding site [ion binding]; other site 334390003082 cytosine deaminase; Provisional; Region: PRK09230 334390003083 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 334390003084 active site 334390003085 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 334390003086 active site 334390003087 metal-binding site [ion binding] 334390003088 nucleotide-binding site [chemical binding]; other site 334390003089 recombination factor protein RarA; Reviewed; Region: PRK13342 334390003090 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 334390003091 Walker A motif; other site 334390003092 ATP binding site [chemical binding]; other site 334390003093 Walker B motif; other site 334390003094 arginine finger; other site 334390003095 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 334390003096 Protein of unknown function (DUF554); Region: DUF554; pfam04474 334390003097 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 334390003098 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 334390003099 Transposase; Region: DDE_Tnp_ISL3; pfam01610 334390003100 hypothetical protein; Provisional; Region: PRK07475 334390003101 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 334390003102 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 334390003103 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 334390003104 homodimer interface [polypeptide binding]; other site 334390003105 substrate-cofactor binding pocket; other site 334390003106 catalytic residue [active] 334390003107 maltose O-acetyltransferase; Provisional; Region: PRK10092 334390003108 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 334390003109 active site 334390003110 substrate binding site [chemical binding]; other site 334390003111 trimer interface [polypeptide binding]; other site 334390003112 CoA binding site [chemical binding]; other site 334390003113 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 334390003114 active site 334390003115 substrate binding site [chemical binding]; other site 334390003116 trimer interface [polypeptide binding]; other site 334390003117 Fic/DOC family; Region: Fic; pfam02661 334390003118 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334390003119 active site 334390003120 benzoate transport; Region: 2A0115; TIGR00895 334390003121 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 334390003122 putative substrate translocation pore; other site 334390003123 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 334390003124 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 334390003125 transaminase; Validated; Region: PRK07324 334390003126 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 334390003127 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390003128 homodimer interface [polypeptide binding]; other site 334390003129 catalytic residue [active] 334390003130 Phage minor capsid protein 2; Region: Phage_min_cap2; pfam06152 334390003131 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 334390003132 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 334390003133 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 334390003134 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334390003135 Coenzyme A binding pocket [chemical binding]; other site 334390003136 Uncharacterized protein conserved in bacteria (DUF2316); Region: DUF2316; cl01805 334390003137 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 334390003138 putative active site [active] 334390003139 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 334390003140 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 334390003141 active site 334390003142 catalytic tetrad [active] 334390003143 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 334390003144 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 334390003145 substrate binding site [chemical binding]; other site 334390003146 ATP binding site [chemical binding]; other site 334390003147 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 334390003148 isocitrate dehydrogenase; Validated; Region: PRK07362 334390003149 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 334390003150 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 334390003151 active site 334390003152 DNA binding site [nucleotide binding] 334390003153 Int/Topo IB signature motif; other site 334390003154 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 334390003155 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 334390003156 active site 334390003157 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 334390003158 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 334390003159 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390003160 homodimer interface [polypeptide binding]; other site 334390003161 catalytic residue [active] 334390003162 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 334390003163 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 334390003164 putative NAD(P) binding site [chemical binding]; other site 334390003165 catalytic Zn binding site [ion binding]; other site 334390003166 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 334390003167 Quinone oxidoreductase (QOR); Region: quinone_oxidoreductase_like_1; cd08243 334390003168 putative NAD(P) binding site [chemical binding]; other site 334390003169 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 334390003170 ABC-ATPase subunit interface; other site 334390003171 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 334390003172 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334390003173 Walker A/P-loop; other site 334390003174 ATP binding site [chemical binding]; other site 334390003175 Q-loop/lid; other site 334390003176 ABC transporter signature motif; other site 334390003177 Walker B; other site 334390003178 D-loop; other site 334390003179 H-loop/switch region; other site 334390003180 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 334390003181 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 334390003182 Predicted transcriptional regulator [Transcription]; Region: COG1959 334390003183 Transcriptional regulator; Region: Rrf2; pfam02082 334390003184 OsmC-like protein; Region: OsmC; pfam02566 334390003185 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 334390003186 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334390003187 Coenzyme A binding pocket [chemical binding]; other site 334390003188 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 334390003189 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390003190 NADH(P)-binding; Region: NAD_binding_10; pfam13460 334390003191 NAD(P) binding site [chemical binding]; other site 334390003192 active site 334390003193 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334390003194 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334390003195 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 334390003196 active site 334390003197 DNA binding site [nucleotide binding] 334390003198 Int/Topo IB signature motif; other site 334390003199 EamA-like transporter family; Region: EamA; pfam00892 334390003200 EamA-like transporter family; Region: EamA; pfam00892 334390003201 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 334390003202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390003203 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 334390003204 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 334390003205 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 334390003206 substrate binding site [chemical binding]; other site 334390003207 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 334390003208 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 334390003209 substrate binding site [chemical binding]; other site 334390003210 ligand binding site [chemical binding]; other site 334390003211 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 334390003212 tartrate dehydrogenase; Region: TTC; TIGR02089 334390003213 benzoate transport; Region: 2A0115; TIGR00895 334390003214 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 334390003215 putative substrate translocation pore; other site 334390003216 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 334390003217 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 334390003218 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 334390003219 CoenzymeA binding site [chemical binding]; other site 334390003220 subunit interaction site [polypeptide binding]; other site 334390003221 PHB binding site; other site 334390003222 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 334390003223 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 334390003224 substrate binding site [chemical binding]; other site 334390003225 oxyanion hole (OAH) forming residues; other site 334390003226 trimer interface [polypeptide binding]; other site 334390003227 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 334390003228 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 334390003229 acyl-activating enzyme (AAE) consensus motif; other site 334390003230 putative AMP binding site [chemical binding]; other site 334390003231 putative active site [active] 334390003232 putative CoA binding site [chemical binding]; other site 334390003233 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 334390003234 D-galactonate transporter; Region: 2A0114; TIGR00893 334390003235 putative substrate translocation pore; other site 334390003236 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 334390003237 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 334390003238 tetramer interface [polypeptide binding]; other site 334390003239 catalytic Zn binding site [ion binding]; other site 334390003240 NADP binding site [chemical binding]; other site 334390003241 cystathionine beta-lyase; Provisional; Region: PRK07671 334390003242 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 334390003243 homodimer interface [polypeptide binding]; other site 334390003244 substrate-cofactor binding pocket; other site 334390003245 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390003246 catalytic residue [active] 334390003247 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 334390003248 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 334390003249 dimer interface [polypeptide binding]; other site 334390003250 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390003251 catalytic residue [active] 334390003252 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 334390003253 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 334390003254 Predicted transcriptional regulator [Transcription]; Region: COG2378 334390003255 HTH domain; Region: HTH_11; pfam08279 334390003256 WYL domain; Region: WYL; pfam13280 334390003257 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390003258 Helix-turn-helix domain; Region: HTH_38; pfam13936 334390003259 Homeodomain-like domain; Region: HTH_32; pfam13565 334390003260 Integrase core domain; Region: rve; pfam00665 334390003261 EamA-like transporter family; Region: EamA; pfam00892 334390003262 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 334390003263 This conserved region includes the FMN-binding site of the NqrC protein as well as the NosR and NirI regulatory proteins; Region: FMN_bind; smart00900 334390003264 FAD binding domain; Region: FAD_binding_2; pfam00890 334390003265 L-aspartate oxidase; Provisional; Region: PRK06175 334390003266 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334390003267 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334390003268 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 334390003269 dimerization interface [polypeptide binding]; other site 334390003270 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 334390003271 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 334390003272 active site 334390003273 nucleophile elbow; other site 334390003274 putative acyltransferase; Provisional; Region: PRK05790 334390003275 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 334390003276 dimer interface [polypeptide binding]; other site 334390003277 active site 334390003278 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 334390003279 Domain of unknown function DUF20; Region: UPF0118; pfam01594 334390003280 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 334390003281 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 334390003282 tetramer interfaces [polypeptide binding]; other site 334390003283 binuclear metal-binding site [ion binding]; other site 334390003284 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 334390003285 Beta-lactamase; Region: Beta-lactamase; pfam00144 334390003286 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 334390003287 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 334390003288 putative active site [active] 334390003289 catalytic site [active] 334390003290 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 334390003291 Walker A motif; other site 334390003292 ATP binding site [chemical binding]; other site 334390003293 Walker B motif; other site 334390003294 arginine finger; other site 334390003295 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08293 334390003296 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 334390003297 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 334390003298 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 334390003299 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 334390003300 Peptidase family C69; Region: Peptidase_C69; pfam03577 334390003301 TPR repeat; Region: TPR_11; pfam13414 334390003302 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390003303 Helix-turn-helix domain; Region: HTH_38; pfam13936 334390003304 Homeodomain-like domain; Region: HTH_32; pfam13565 334390003305 Integrase core domain; Region: rve; pfam00665 334390003306 putative transport protein YifK; Provisional; Region: PRK10746 334390003307 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 334390003308 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 334390003309 TPP-binding site; other site 334390003310 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 334390003311 PYR/PP interface [polypeptide binding]; other site 334390003312 dimer interface [polypeptide binding]; other site 334390003313 TPP binding site [chemical binding]; other site 334390003314 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 334390003315 AAA ATPase domain; Region: AAA_16; pfam13191 334390003316 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 334390003317 Uncharacterized conserved protein [Function unknown]; Region: COG3410 334390003318 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 334390003319 active site 334390003320 multimer interface [polypeptide binding]; other site 334390003321 Predicted transcriptional regulators [Transcription]; Region: COG1695 334390003322 Transcriptional regulator PadR-like family; Region: PadR; cl17335 334390003323 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 334390003324 Acyltransferase family; Region: Acyl_transf_3; pfam01757 334390003325 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 334390003326 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 334390003327 substrate binding pocket [chemical binding]; other site 334390003328 membrane-bound complex binding site; other site 334390003329 hinge residues; other site 334390003330 aspartate aminotransferase; Provisional; Region: PRK05764 334390003331 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 334390003332 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390003333 homodimer interface [polypeptide binding]; other site 334390003334 catalytic residue [active] 334390003335 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 334390003336 guanine deaminase; Region: guan_deamin; TIGR02967 334390003337 active site 334390003338 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 334390003339 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 334390003340 metal binding site [ion binding]; metal-binding site 334390003341 dimer interface [polypeptide binding]; other site 334390003342 Low molecular weight phosphatase family; Region: LMWPc; cl00105 334390003343 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 334390003344 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 334390003345 active site 334390003346 catalytic site [active] 334390003347 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 334390003348 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 334390003349 DNA binding residues [nucleotide binding] 334390003350 putative dimer interface [polypeptide binding]; other site 334390003351 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 334390003352 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 334390003353 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 334390003354 Walker A/P-loop; other site 334390003355 ATP binding site [chemical binding]; other site 334390003356 Q-loop/lid; other site 334390003357 ABC transporter signature motif; other site 334390003358 Walker B; other site 334390003359 D-loop; other site 334390003360 H-loop/switch region; other site 334390003361 acetolactate synthase; Reviewed; Region: PRK08617 334390003362 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 334390003363 PYR/PP interface [polypeptide binding]; other site 334390003364 dimer interface [polypeptide binding]; other site 334390003365 TPP binding site [chemical binding]; other site 334390003366 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 334390003367 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 334390003368 TPP-binding site [chemical binding]; other site 334390003369 dimer interface [polypeptide binding]; other site 334390003370 GIY-YIG domain of uncharacterized bacterial protein structurally related to COG3410; Region: GIY-YIG_COG3410; cd10439 334390003371 GIY-YIG motif/motif A; other site 334390003372 putative active site [active] 334390003373 putative metal binding site [ion binding]; other site 334390003374 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 334390003375 Uncharacterized conserved protein [Function unknown]; Region: COG3410 334390003376 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 334390003377 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 334390003378 DNA binding residues [nucleotide binding] 334390003379 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 334390003380 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 334390003381 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 334390003382 CrcB-like protein; Region: CRCB; pfam02537 334390003383 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 334390003384 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 334390003385 dimer interface [polypeptide binding]; other site 334390003386 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334390003387 metal binding site [ion binding]; metal-binding site 334390003388 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 334390003389 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334390003390 Coenzyme A binding pocket [chemical binding]; other site 334390003391 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 334390003392 ABC1 family; Region: ABC1; cl17513 334390003393 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cd00322 334390003394 FAD binding pocket [chemical binding]; other site 334390003395 conserved FAD binding motif [chemical binding]; other site 334390003396 phosphate binding motif [ion binding]; other site 334390003397 beta-alpha-beta structure motif; other site 334390003398 NAD binding pocket [chemical binding]; other site 334390003399 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 334390003400 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 334390003401 nucleotide binding site [chemical binding]; other site 334390003402 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 334390003403 Penicillinase repressor; Region: Pencillinase_R; pfam03965 334390003404 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 334390003405 Int/Topo IB signature motif; other site 334390003406 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390003407 MULE transposase domain; Region: MULE; pfam10551 334390003408 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 334390003409 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 334390003410 ATP binding site [chemical binding]; other site 334390003411 putative Mg++ binding site [ion binding]; other site 334390003412 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 334390003413 nucleotide binding region [chemical binding]; other site 334390003414 ATP-binding site [chemical binding]; other site 334390003415 Integrase core domain; Region: rve; pfam00665 334390003416 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 334390003417 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 334390003418 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 334390003419 DNA methylase; Region: N6_N4_Mtase; pfam01555 334390003420 DNA methylase; Region: N6_N4_Mtase; pfam01555 334390003421 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390003422 Helix-turn-helix domain; Region: HTH_38; pfam13936 334390003423 Integrase core domain; Region: rve; pfam00665 334390003424 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 334390003425 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 334390003426 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 334390003427 non-specific DNA binding site [nucleotide binding]; other site 334390003428 salt bridge; other site 334390003429 sequence-specific DNA binding site [nucleotide binding]; other site 334390003430 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 334390003431 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 334390003432 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 334390003433 N- and C-terminal domain interface [polypeptide binding]; other site 334390003434 active site 334390003435 catalytic site [active] 334390003436 metal binding site [ion binding]; metal-binding site 334390003437 carbohydrate binding site [chemical binding]; other site 334390003438 ATP binding site [chemical binding]; other site 334390003439 GntP family permease; Region: GntP_permease; pfam02447 334390003440 fructuronate transporter; Provisional; Region: PRK10034; cl15264 334390003441 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334390003442 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390003443 DNA binding site [nucleotide binding] 334390003444 domain linker motif; other site 334390003445 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 334390003446 putative dimerization interface [polypeptide binding]; other site 334390003447 putative ligand binding site [chemical binding]; other site 334390003448 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 334390003449 aspartate aminotransferase; Provisional; Region: PRK05764 334390003450 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 334390003451 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390003452 homodimer interface [polypeptide binding]; other site 334390003453 catalytic residue [active] 334390003454 VanZ like family; Region: VanZ; pfam04892 334390003455 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 334390003456 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 334390003457 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 334390003458 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 334390003459 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 334390003460 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 334390003461 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 334390003462 [4Fe-4S] binding site [ion binding]; other site 334390003463 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 334390003464 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 334390003465 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 334390003466 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 334390003467 molybdopterin cofactor binding site; other site 334390003468 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 334390003469 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 334390003470 ATP binding site [chemical binding]; other site 334390003471 substrate interface [chemical binding]; other site 334390003472 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 334390003473 MPT binding site; other site 334390003474 trimer interface [polypeptide binding]; other site 334390003475 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 334390003476 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 334390003477 dimer interface [polypeptide binding]; other site 334390003478 putative functional site; other site 334390003479 putative MPT binding site; other site 334390003480 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 334390003481 trimer interface [polypeptide binding]; other site 334390003482 dimer interface [polypeptide binding]; other site 334390003483 putative active site [active] 334390003484 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 334390003485 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 334390003486 GTP binding site; other site 334390003487 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 334390003488 Histidine kinase; Region: HisKA_3; pfam07730 334390003489 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 334390003490 ATP binding site [chemical binding]; other site 334390003491 Mg2+ binding site [ion binding]; other site 334390003492 G-X-G motif; other site 334390003493 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 334390003494 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 334390003495 active site 334390003496 phosphorylation site [posttranslational modification] 334390003497 intermolecular recognition site; other site 334390003498 dimerization interface [polypeptide binding]; other site 334390003499 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 334390003500 DNA binding residues [nucleotide binding] 334390003501 dimerization interface [polypeptide binding]; other site 334390003502 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 334390003503 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 334390003504 S-adenosylmethionine binding site [chemical binding]; other site 334390003505 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 334390003506 non-specific DNA binding site [nucleotide binding]; other site 334390003507 salt bridge; other site 334390003508 sequence-specific DNA binding site [nucleotide binding]; other site 334390003509 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 334390003510 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 334390003511 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 334390003512 putative substrate translocation pore; other site 334390003513 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 334390003514 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 334390003515 FeS/SAM binding site; other site 334390003516 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 334390003517 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 334390003518 MoaE interaction surface [polypeptide binding]; other site 334390003519 MoeB interaction surface [polypeptide binding]; other site 334390003520 thiocarboxylated glycine; other site 334390003521 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 334390003522 MoaE homodimer interface [polypeptide binding]; other site 334390003523 MoaD interaction [polypeptide binding]; other site 334390003524 active site residues [active] 334390003525 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 334390003526 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 334390003527 ABC-ATPase subunit interface; other site 334390003528 dimer interface [polypeptide binding]; other site 334390003529 putative PBP binding regions; other site 334390003530 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 334390003531 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 334390003532 Walker A/P-loop; other site 334390003533 ATP binding site [chemical binding]; other site 334390003534 Q-loop/lid; other site 334390003535 ABC transporter signature motif; other site 334390003536 Walker B; other site 334390003537 D-loop; other site 334390003538 H-loop/switch region; other site 334390003539 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 334390003540 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334390003541 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 334390003542 Uncharacterized conserved protein [Function unknown]; Region: COG2461 334390003543 Family of unknown function (DUF438); Region: DUF438; pfam04282 334390003544 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 334390003545 EamA-like transporter family; Region: EamA; pfam00892 334390003546 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 334390003547 EamA-like transporter family; Region: EamA; pfam00892 334390003548 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390003549 Helix-turn-helix domain; Region: HTH_38; pfam13936 334390003550 Homeodomain-like domain; Region: HTH_32; pfam13565 334390003551 Integrase core domain; Region: rve; pfam00665 334390003552 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 334390003553 putative ligand binding residues [chemical binding]; other site 334390003554 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 334390003555 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 334390003556 FeS assembly protein SufB; Region: sufB; TIGR01980 334390003557 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 334390003558 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 334390003559 trimerization site [polypeptide binding]; other site 334390003560 active site 334390003561 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 334390003562 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 334390003563 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334390003564 catalytic residue [active] 334390003565 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 334390003566 FeS assembly protein SufD; Region: sufD; TIGR01981 334390003567 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 334390003568 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 334390003569 Walker A/P-loop; other site 334390003570 ATP binding site [chemical binding]; other site 334390003571 Q-loop/lid; other site 334390003572 ABC transporter signature motif; other site 334390003573 Walker B; other site 334390003574 D-loop; other site 334390003575 H-loop/switch region; other site 334390003576 FeoA domain; Region: FeoA; pfam04023 334390003577 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 334390003578 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 334390003579 G1 box; other site 334390003580 GTP/Mg2+ binding site [chemical binding]; other site 334390003581 Switch I region; other site 334390003582 G2 box; other site 334390003583 G3 box; other site 334390003584 Switch II region; other site 334390003585 G4 box; other site 334390003586 G5 box; other site 334390003587 Nucleoside recognition; Region: Gate; pfam07670 334390003588 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 334390003589 Nucleoside recognition; Region: Gate; pfam07670 334390003590 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 334390003591 UbiA prenyltransferase family; Region: UbiA; pfam01040 334390003592 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 334390003593 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 334390003594 substrate binding pocket [chemical binding]; other site 334390003595 chain length determination region; other site 334390003596 substrate-Mg2+ binding site; other site 334390003597 catalytic residues [active] 334390003598 aspartate-rich region 1; other site 334390003599 active site lid residues [active] 334390003600 aspartate-rich region 2; other site 334390003601 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 334390003602 D-lactate dehydrogenase; Validated; Region: PRK08605 334390003603 homodimer interface [polypeptide binding]; other site 334390003604 ligand binding site [chemical binding]; other site 334390003605 NAD binding site [chemical binding]; other site 334390003606 catalytic site [active] 334390003607 aspartate aminotransferase; Provisional; Region: PRK06348 334390003608 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 334390003609 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390003610 homodimer interface [polypeptide binding]; other site 334390003611 catalytic residue [active] 334390003612 shikimate kinase; Reviewed; Region: aroK; PRK00131 334390003613 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 334390003614 ADP binding site [chemical binding]; other site 334390003615 magnesium binding site [ion binding]; other site 334390003616 putative shikimate binding site; other site 334390003617 prephenate dehydrogenase; Validated; Region: PRK06545 334390003618 prephenate dehydrogenase; Validated; Region: PRK08507 334390003619 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 334390003620 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 334390003621 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 334390003622 hinge; other site 334390003623 active site 334390003624 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 334390003625 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 334390003626 Tetramer interface [polypeptide binding]; other site 334390003627 active site 334390003628 FMN-binding site [chemical binding]; other site 334390003629 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 334390003630 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334390003631 putative substrate translocation pore; other site 334390003632 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 334390003633 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 334390003634 POT family; Region: PTR2; cl17359 334390003635 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 334390003636 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 334390003637 active site 334390003638 motif I; other site 334390003639 motif II; other site 334390003640 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 334390003641 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 334390003642 NADP binding site [chemical binding]; other site 334390003643 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 334390003644 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 334390003645 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334390003646 putative substrate translocation pore; other site 334390003647 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 334390003648 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 334390003649 K+ potassium transporter; Region: K_trans; pfam02705 334390003650 glycerol kinase; Provisional; Region: glpK; PRK00047 334390003651 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 334390003652 N- and C-terminal domain interface [polypeptide binding]; other site 334390003653 active site 334390003654 MgATP binding site [chemical binding]; other site 334390003655 catalytic site [active] 334390003656 metal binding site [ion binding]; metal-binding site 334390003657 glycerol binding site [chemical binding]; other site 334390003658 homotetramer interface [polypeptide binding]; other site 334390003659 homodimer interface [polypeptide binding]; other site 334390003660 FBP binding site [chemical binding]; other site 334390003661 protein IIAGlc interface [polypeptide binding]; other site 334390003662 4-oxalocrotonate tautomerase; Provisional; Region: PRK02220 334390003663 active site 1 [active] 334390003664 dimer interface [polypeptide binding]; other site 334390003665 hexamer interface [polypeptide binding]; other site 334390003666 active site 2 [active] 334390003667 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 334390003668 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 334390003669 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 334390003670 TrkA-N domain; Region: TrkA_N; pfam02254 334390003671 TrkA-C domain; Region: TrkA_C; pfam02080 334390003672 Peptidase family C69; Region: Peptidase_C69; pfam03577 334390003673 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 334390003674 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 334390003675 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 334390003676 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 334390003677 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334390003678 active site 334390003679 metal binding site [ion binding]; metal-binding site 334390003680 drug efflux system protein MdtG; Provisional; Region: PRK09874 334390003681 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 334390003682 putative substrate translocation pore; other site 334390003683 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 334390003684 Domain of unknown function DUF21; Region: DUF21; pfam01595 334390003685 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 334390003686 Transporter associated domain; Region: CorC_HlyC; pfam03471 334390003687 benzoate transport; Region: 2A0115; TIGR00895 334390003688 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 334390003689 putative substrate translocation pore; other site 334390003690 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 334390003691 dimerization interface [polypeptide binding]; other site 334390003692 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334390003693 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334390003694 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 334390003695 active site 334390003696 oxyanion hole [active] 334390003697 catalytic triad [active] 334390003698 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 334390003699 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 334390003700 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 334390003701 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 334390003702 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 334390003703 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334390003704 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 334390003705 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 334390003706 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 334390003707 E3 interaction surface; other site 334390003708 lipoyl attachment site [posttranslational modification]; other site 334390003709 e3 binding domain; Region: E3_binding; pfam02817 334390003710 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 334390003711 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 334390003712 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 334390003713 alpha subunit interface [polypeptide binding]; other site 334390003714 TPP binding site [chemical binding]; other site 334390003715 heterodimer interface [polypeptide binding]; other site 334390003716 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 334390003717 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 334390003718 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 334390003719 tetramer interface [polypeptide binding]; other site 334390003720 TPP-binding site [chemical binding]; other site 334390003721 heterodimer interface [polypeptide binding]; other site 334390003722 phosphorylation loop region [posttranslational modification] 334390003723 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 334390003724 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 334390003725 AzlC protein; Region: AzlC; cl00570 334390003726 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 334390003727 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 334390003728 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390003729 catalytic residue [active] 334390003730 homoserine dehydrogenase; Provisional; Region: PRK06349 334390003731 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 334390003732 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 334390003733 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 334390003734 homoserine kinase; Provisional; Region: PRK01212 334390003735 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 334390003736 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 334390003737 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334390003738 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334390003739 Coenzyme A binding pocket [chemical binding]; other site 334390003740 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 334390003741 NADH(P)-binding; Region: NAD_binding_10; pfam13460 334390003742 NAD(P) binding site [chemical binding]; other site 334390003743 putative active site [active] 334390003744 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 334390003745 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 334390003746 Protein of unknown function (DUF328); Region: DUF328; pfam03883 334390003747 EDD domain protein, DegV family; Region: DegV; TIGR00762 334390003748 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 334390003749 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 334390003750 Domain of unknown function (DUF814); Region: DUF814; pfam05670 334390003751 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390003752 MULE transposase domain; Region: MULE; pfam10551 334390003753 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 334390003754 Low molecular weight phosphatase family; Region: LMWPc; cd00115 334390003755 active site 334390003756 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 334390003757 arsenical-resistance protein; Region: acr3; TIGR00832 334390003758 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 334390003759 dimerization interface [polypeptide binding]; other site 334390003760 putative DNA binding site [nucleotide binding]; other site 334390003761 putative Zn2+ binding site [ion binding]; other site 334390003762 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390003763 Helix-turn-helix domain; Region: HTH_38; pfam13936 334390003764 Integrase core domain; Region: rve; pfam00665 334390003765 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334390003766 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334390003767 LysR substrate binding domain; Region: LysR_substrate; pfam03466 334390003768 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 334390003769 active site 334390003770 zinc binding site [ion binding]; other site 334390003771 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 334390003772 ATP-grasp domain; Region: ATP-grasp_4; cl17255 334390003773 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 334390003774 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 334390003775 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 334390003776 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 334390003777 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 334390003778 catalytic site [active] 334390003779 subunit interface [polypeptide binding]; other site 334390003780 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 334390003781 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 334390003782 RNA binding surface [nucleotide binding]; other site 334390003783 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 334390003784 active site 334390003785 lipoprotein signal peptidase; Provisional; Region: PRK14797 334390003786 lipoprotein signal peptidase; Provisional; Region: PRK14787 334390003787 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 334390003788 RNA/DNA hybrid binding site [nucleotide binding]; other site 334390003789 active site 334390003790 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 334390003791 dimer interface [polypeptide binding]; other site 334390003792 FMN binding site [chemical binding]; other site 334390003793 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 334390003794 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 334390003795 substrate binding pocket [chemical binding]; other site 334390003796 membrane-bound complex binding site; other site 334390003797 hinge residues; other site 334390003798 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 334390003799 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 334390003800 dimer interface [polypeptide binding]; other site 334390003801 conserved gate region; other site 334390003802 putative PBP binding loops; other site 334390003803 ABC-ATPase subunit interface; other site 334390003804 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 334390003805 Transposase; Region: HTH_Tnp_1; cl17663 334390003806 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390003807 MULE transposase domain; Region: MULE; pfam10551 334390003808 putative transposase OrfB; Reviewed; Region: PHA02517 334390003809 HTH-like domain; Region: HTH_21; pfam13276 334390003810 Integrase core domain; Region: rve; pfam00665 334390003811 Integrase core domain; Region: rve_3; pfam13683 334390003812 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 334390003813 serine-rich repeat adhesion glycoprotein AST domain; Region: ser_adhes_Nterm; TIGR04224 334390003814 HTH-like domain; Region: HTH_21; pfam13276 334390003815 Integrase core domain; Region: rve; pfam00665 334390003816 Integrase core domain; Region: rve_3; cl15866 334390003817 amidase; Provisional; Region: PRK06529 334390003818 Amidase; Region: Amidase; cl11426 334390003819 Predicted membrane protein [Function unknown]; Region: COG1288 334390003820 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 334390003821 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 334390003822 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 334390003823 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_18; cd04677 334390003824 nudix motif; other site 334390003825 AAA-like domain; Region: AAA_10; pfam12846 334390003826 Zonular occludens toxin (Zot); Region: Zot; cl17485 334390003827 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 334390003828 elongation factor G; Reviewed; Region: PRK12740 334390003829 G1 box; other site 334390003830 putative GEF interaction site [polypeptide binding]; other site 334390003831 GTP/Mg2+ binding site [chemical binding]; other site 334390003832 Switch I region; other site 334390003833 G2 box; other site 334390003834 G3 box; other site 334390003835 Switch II region; other site 334390003836 G4 box; other site 334390003837 G5 box; other site 334390003838 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 334390003839 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 334390003840 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 334390003841 cell division protein GpsB; Provisional; Region: PRK14127 334390003842 hypothetical protein; Provisional; Region: PRK13660 334390003843 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 334390003844 Transglycosylase; Region: Transgly; pfam00912 334390003845 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 334390003846 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 334390003847 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 334390003848 EamA-like transporter family; Region: EamA; pfam00892 334390003849 EamA-like transporter family; Region: EamA; pfam00892 334390003850 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 334390003851 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 334390003852 active site 334390003853 catalytic tetrad [active] 334390003854 Predicted secreted protein [Function unknown]; Region: COG4086 334390003855 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 334390003856 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 334390003857 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 334390003858 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 334390003859 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 334390003860 putative dimer interface [polypeptide binding]; other site 334390003861 putative anticodon binding site; other site 334390003862 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 334390003863 homodimer interface [polypeptide binding]; other site 334390003864 motif 1; other site 334390003865 motif 2; other site 334390003866 active site 334390003867 motif 3; other site 334390003868 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 334390003869 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 334390003870 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 334390003871 active site 334390003872 catalytic site [active] 334390003873 substrate binding site [chemical binding]; other site 334390003874 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 334390003875 mevalonate kinase; Region: mevalon_kin; TIGR00549 334390003876 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 334390003877 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 334390003878 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 334390003879 diphosphomevalonate decarboxylase; Region: PLN02407 334390003880 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 334390003881 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 334390003882 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 334390003883 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 334390003884 homotetramer interface [polypeptide binding]; other site 334390003885 FMN binding site [chemical binding]; other site 334390003886 homodimer contacts [polypeptide binding]; other site 334390003887 putative active site [active] 334390003888 putative substrate binding site [chemical binding]; other site 334390003889 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390003890 Helix-turn-helix domain; Region: HTH_38; pfam13936 334390003891 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 334390003892 Q-loop/lid; other site 334390003893 ABC transporter signature motif; other site 334390003894 Walker B; other site 334390003895 D-loop; other site 334390003896 H-loop/switch region; other site 334390003897 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390003898 MULE transposase domain; Region: MULE; pfam10551 334390003899 Transposase IS200 like; Region: Y1_Tnp; pfam01797 334390003900 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 334390003901 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 334390003902 S-adenosylmethionine binding site [chemical binding]; other site 334390003903 Uncharacterized conserved protein [Function unknown]; Region: COG3270 334390003904 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 334390003905 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 334390003906 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 334390003907 active site 334390003908 motif I; other site 334390003909 motif II; other site 334390003910 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 334390003911 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 334390003912 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 334390003913 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 334390003914 heterodimer interface [polypeptide binding]; other site 334390003915 active site 334390003916 FMN binding site [chemical binding]; other site 334390003917 homodimer interface [polypeptide binding]; other site 334390003918 substrate binding site [chemical binding]; other site 334390003919 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 334390003920 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 334390003921 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 334390003922 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 334390003923 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 334390003924 ATP-grasp domain; Region: ATP-grasp_4; cl17255 334390003925 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 334390003926 IMP binding site; other site 334390003927 dimer interface [polypeptide binding]; other site 334390003928 interdomain contacts; other site 334390003929 partial ornithine binding site; other site 334390003930 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 334390003931 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 334390003932 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 334390003933 catalytic site [active] 334390003934 subunit interface [polypeptide binding]; other site 334390003935 dihydroorotase; Validated; Region: pyrC; PRK09357 334390003936 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 334390003937 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 334390003938 active site 334390003939 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 334390003940 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 334390003941 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 334390003942 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 334390003943 Transposase; Region: HTH_Tnp_1; cl17663 334390003944 putative transposase OrfB; Reviewed; Region: PHA02517 334390003945 HTH-like domain; Region: HTH_21; pfam13276 334390003946 Integrase core domain; Region: rve; pfam00665 334390003947 Integrase core domain; Region: rve_3; pfam13683 334390003948 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 334390003949 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 334390003950 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 334390003951 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 334390003952 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cl12004 334390003953 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 334390003954 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 334390003955 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390003956 MULE transposase domain; Region: MULE; pfam10551 334390003957 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 334390003958 CRISPR-associated helicase Cas3 [Defense mechanisms]; Region: COG1203 334390003959 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 334390003960 putative transposase OrfB; Reviewed; Region: PHA02517 334390003961 HTH-like domain; Region: HTH_21; pfam13276 334390003962 Integrase core domain; Region: rve; pfam00665 334390003963 Integrase core domain; Region: rve_3; pfam13683 334390003964 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 334390003965 Transposase; Region: HTH_Tnp_1; cl17663 334390003966 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 334390003967 Transposase; Region: DDE_Tnp_ISL3; pfam01610 334390003968 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 334390003969 amino acid transporter; Region: 2A0306; TIGR00909 334390003970 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 334390003971 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 334390003972 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 334390003973 RimM N-terminal domain; Region: RimM; pfam01782 334390003974 PRC-barrel domain; Region: PRC; pfam05239 334390003975 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 334390003976 KH domain; Region: KH_4; pfam13083 334390003977 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 334390003978 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 334390003979 PhoU domain; Region: PhoU; pfam01895 334390003980 PhoU domain; Region: PhoU; pfam01895 334390003981 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 334390003982 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 334390003983 Walker A/P-loop; other site 334390003984 ATP binding site [chemical binding]; other site 334390003985 Q-loop/lid; other site 334390003986 ABC transporter signature motif; other site 334390003987 Walker B; other site 334390003988 D-loop; other site 334390003989 H-loop/switch region; other site 334390003990 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 334390003991 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 334390003992 dimer interface [polypeptide binding]; other site 334390003993 conserved gate region; other site 334390003994 putative PBP binding loops; other site 334390003995 ABC-ATPase subunit interface; other site 334390003996 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 334390003997 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 334390003998 dimer interface [polypeptide binding]; other site 334390003999 conserved gate region; other site 334390004000 putative PBP binding loops; other site 334390004001 ABC-ATPase subunit interface; other site 334390004002 PBP superfamily domain; Region: PBP_like_2; cl17296 334390004003 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 334390004004 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334390004005 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 334390004006 DNA binding site [nucleotide binding] 334390004007 signal recognition particle protein; Provisional; Region: PRK10867 334390004008 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 334390004009 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 334390004010 P loop; other site 334390004011 GTP binding site [chemical binding]; other site 334390004012 Signal peptide binding domain; Region: SRP_SPB; pfam02978 334390004013 putative DNA-binding protein; Validated; Region: PRK00118 334390004014 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 334390004015 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 334390004016 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 334390004017 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 334390004018 P loop; other site 334390004019 GTP binding site [chemical binding]; other site 334390004020 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 334390004021 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 334390004022 Walker A/P-loop; other site 334390004023 ATP binding site [chemical binding]; other site 334390004024 Q-loop/lid; other site 334390004025 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 334390004026 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 334390004027 ABC transporter signature motif; other site 334390004028 Walker B; other site 334390004029 D-loop; other site 334390004030 H-loop/switch region; other site 334390004031 ribonuclease III; Reviewed; Region: rnc; PRK00102 334390004032 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 334390004033 dimerization interface [polypeptide binding]; other site 334390004034 active site 334390004035 metal binding site [ion binding]; metal-binding site 334390004036 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 334390004037 dsRNA binding site [nucleotide binding]; other site 334390004038 acyl carrier protein; Provisional; Region: acpP; PRK00982 334390004039 putative phosphate acyltransferase; Provisional; Region: PRK05331 334390004040 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 334390004041 Y-family of DNA polymerases; Region: PolY; cl12025 334390004042 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 334390004043 ATP binding site [chemical binding]; other site 334390004044 putative Mg++ binding site [ion binding]; other site 334390004045 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 334390004046 nucleotide binding region [chemical binding]; other site 334390004047 ATP-binding site [chemical binding]; other site 334390004048 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 334390004049 DAK2 domain; Region: Dak2; pfam02734 334390004050 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 334390004051 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 334390004052 Thiamine pyrophosphokinase; Region: TPK; cd07995 334390004053 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 334390004054 active site 334390004055 dimerization interface [polypeptide binding]; other site 334390004056 thiamine binding site [chemical binding]; other site 334390004057 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 334390004058 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 334390004059 substrate binding site [chemical binding]; other site 334390004060 hexamer interface [polypeptide binding]; other site 334390004061 metal binding site [ion binding]; metal-binding site 334390004062 GTPase RsgA; Reviewed; Region: PRK00098 334390004063 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 334390004064 RNA binding site [nucleotide binding]; other site 334390004065 homodimer interface [polypeptide binding]; other site 334390004066 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 334390004067 GTPase/Zn-binding domain interface [polypeptide binding]; other site 334390004068 GTP/Mg2+ binding site [chemical binding]; other site 334390004069 G4 box; other site 334390004070 G5 box; other site 334390004071 G1 box; other site 334390004072 Switch I region; other site 334390004073 G2 box; other site 334390004074 G3 box; other site 334390004075 Switch II region; other site 334390004076 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 334390004077 Catalytic domain of Protein Kinases; Region: PKc; cd00180 334390004078 active site 334390004079 ATP binding site [chemical binding]; other site 334390004080 substrate binding site [chemical binding]; other site 334390004081 activation loop (A-loop); other site 334390004082 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 334390004083 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 334390004084 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 334390004085 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 334390004086 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 334390004087 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 334390004088 active site 334390004089 16S rRNA methyltransferase B; Provisional; Region: PRK14902 334390004090 NusB family; Region: NusB; pfam01029 334390004091 putative RNA binding site [nucleotide binding]; other site 334390004092 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 334390004093 S-adenosylmethionine binding site [chemical binding]; other site 334390004094 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 334390004095 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 334390004096 putative active site [active] 334390004097 substrate binding site [chemical binding]; other site 334390004098 putative cosubstrate binding site; other site 334390004099 catalytic site [active] 334390004100 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 334390004101 substrate binding site [chemical binding]; other site 334390004102 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 334390004103 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 334390004104 ATP binding site [chemical binding]; other site 334390004105 putative Mg++ binding site [ion binding]; other site 334390004106 helicase superfamily c-terminal domain; Region: HELICc; smart00490 334390004107 ATP-binding site [chemical binding]; other site 334390004108 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 334390004109 Flavoprotein; Region: Flavoprotein; pfam02441 334390004110 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 334390004111 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 334390004112 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 334390004113 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 334390004114 catalytic site [active] 334390004115 G-X2-G-X-G-K; other site 334390004116 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 334390004117 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 334390004118 Walker A/P-loop; other site 334390004119 ATP binding site [chemical binding]; other site 334390004120 Q-loop/lid; other site 334390004121 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 334390004122 ABC transporter signature motif; other site 334390004123 Walker B; other site 334390004124 D-loop; other site 334390004125 H-loop/switch region; other site 334390004126 Arginine repressor [Transcription]; Region: ArgR; COG1438 334390004127 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 334390004128 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 334390004129 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 334390004130 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 334390004131 RNA binding surface [nucleotide binding]; other site 334390004132 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 334390004133 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 334390004134 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 334390004135 substrate binding pocket [chemical binding]; other site 334390004136 chain length determination region; other site 334390004137 substrate-Mg2+ binding site; other site 334390004138 catalytic residues [active] 334390004139 aspartate-rich region 1; other site 334390004140 active site lid residues [active] 334390004141 aspartate-rich region 2; other site 334390004142 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 334390004143 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 334390004144 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 334390004145 generic binding surface II; other site 334390004146 generic binding surface I; other site 334390004147 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 334390004148 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 334390004149 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 334390004150 homodimer interface [polypeptide binding]; other site 334390004151 NADP binding site [chemical binding]; other site 334390004152 substrate binding site [chemical binding]; other site 334390004153 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 334390004154 putative RNA binding site [nucleotide binding]; other site 334390004155 Asp23 family; Region: Asp23; pfam03780 334390004156 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 334390004157 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 334390004158 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 334390004159 active site 334390004160 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 334390004161 Protein of unknown function (DUF464); Region: DUF464; pfam04327 334390004162 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 334390004163 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 334390004164 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334390004165 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 334390004166 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 334390004167 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 334390004168 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 334390004169 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 334390004170 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 334390004171 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 334390004172 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 334390004173 active site residue [active] 334390004174 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 334390004175 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 334390004176 nucleotide binding site [chemical binding]; other site 334390004177 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 334390004178 Rhomboid family; Region: Rhomboid; pfam01694 334390004179 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 334390004180 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 334390004181 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 334390004182 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 334390004183 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 334390004184 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 334390004185 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 334390004186 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 334390004187 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 334390004188 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 334390004189 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 334390004190 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 334390004191 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 334390004192 Sugar specificity; other site 334390004193 Pyrimidine base specificity; other site 334390004194 ATP-binding site [chemical binding]; other site 334390004195 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 334390004196 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 334390004197 putative tRNA-binding site [nucleotide binding]; other site 334390004198 B3/4 domain; Region: B3_4; pfam03483 334390004199 tRNA synthetase B5 domain; Region: B5; smart00874 334390004200 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 334390004201 dimer interface [polypeptide binding]; other site 334390004202 motif 1; other site 334390004203 motif 3; other site 334390004204 motif 2; other site 334390004205 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 334390004206 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 334390004207 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 334390004208 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 334390004209 dimer interface [polypeptide binding]; other site 334390004210 motif 1; other site 334390004211 active site 334390004212 motif 2; other site 334390004213 motif 3; other site 334390004214 Predicted transcriptional regulators [Transcription]; Region: COG1733 334390004215 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 334390004216 HD domain; Region: HD; pfam01966 334390004217 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 334390004218 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 334390004219 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 334390004220 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 334390004221 OxaA-like protein precursor; Provisional; Region: PRK02463 334390004222 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 334390004223 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 334390004224 active site 334390004225 catalytic residues [active] 334390004226 metal binding site [ion binding]; metal-binding site 334390004227 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 334390004228 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 334390004229 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 334390004230 HAMP domain; Region: HAMP; pfam00672 334390004231 dimerization interface [polypeptide binding]; other site 334390004232 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 334390004233 dimer interface [polypeptide binding]; other site 334390004234 phosphorylation site [posttranslational modification] 334390004235 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 334390004236 ATP binding site [chemical binding]; other site 334390004237 Mg2+ binding site [ion binding]; other site 334390004238 G-X-G motif; other site 334390004239 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334390004240 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 334390004241 active site 334390004242 phosphorylation site [posttranslational modification] 334390004243 intermolecular recognition site; other site 334390004244 dimerization interface [polypeptide binding]; other site 334390004245 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 334390004246 DNA binding site [nucleotide binding] 334390004247 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 334390004248 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 334390004249 hypothetical protein; Provisional; Region: PRK13670 334390004250 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 334390004251 Methyltransferase domain; Region: Methyltransf_18; pfam12847 334390004252 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 334390004253 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334390004254 Zn2+ binding site [ion binding]; other site 334390004255 Mg2+ binding site [ion binding]; other site 334390004256 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 334390004257 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 334390004258 active site 334390004259 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 334390004260 GTPase YqeH; Provisional; Region: PRK13796 334390004261 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 334390004262 GTP/Mg2+ binding site [chemical binding]; other site 334390004263 G4 box; other site 334390004264 G5 box; other site 334390004265 G1 box; other site 334390004266 Switch I region; other site 334390004267 G2 box; other site 334390004268 G3 box; other site 334390004269 Switch II region; other site 334390004270 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 334390004271 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 334390004272 active site 334390004273 motif I; other site 334390004274 motif II; other site 334390004275 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 334390004276 23S rRNA binding site [nucleotide binding]; other site 334390004277 L21 binding site [polypeptide binding]; other site 334390004278 L13 binding site [polypeptide binding]; other site 334390004279 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 334390004280 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 334390004281 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 334390004282 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 334390004283 primosomal protein DnaI; Reviewed; Region: PRK08939 334390004284 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 334390004285 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 334390004286 Walker A motif; other site 334390004287 ATP binding site [chemical binding]; other site 334390004288 Walker B motif; other site 334390004289 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 334390004290 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 334390004291 ATP cone domain; Region: ATP-cone; pfam03477 334390004292 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 334390004293 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 334390004294 CoA-binding site [chemical binding]; other site 334390004295 ATP-binding [chemical binding]; other site 334390004296 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 334390004297 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 334390004298 DNA binding site [nucleotide binding] 334390004299 catalytic residue [active] 334390004300 H2TH interface [polypeptide binding]; other site 334390004301 putative catalytic residues [active] 334390004302 turnover-facilitating residue; other site 334390004303 intercalation triad [nucleotide binding]; other site 334390004304 8OG recognition residue [nucleotide binding]; other site 334390004305 putative reading head residues; other site 334390004306 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 334390004307 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 334390004308 DNA polymerase I; Provisional; Region: PRK05755 334390004309 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 334390004310 active site 334390004311 metal binding site 1 [ion binding]; metal-binding site 334390004312 putative 5' ssDNA interaction site; other site 334390004313 metal binding site 3; metal-binding site 334390004314 metal binding site 2 [ion binding]; metal-binding site 334390004315 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 334390004316 putative DNA binding site [nucleotide binding]; other site 334390004317 putative metal binding site [ion binding]; other site 334390004318 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 334390004319 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 334390004320 active site 334390004321 DNA binding site [nucleotide binding] 334390004322 catalytic site [active] 334390004323 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 334390004324 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 334390004325 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 334390004326 nucleophilic elbow; other site 334390004327 catalytic site [active] 334390004328 catalytic triad; other site 334390004329 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 334390004330 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 334390004331 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 334390004332 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 334390004333 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334390004334 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334390004335 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 334390004336 putative tRNA-binding site [nucleotide binding]; other site 334390004337 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 334390004338 catalytic residues [active] 334390004339 Predicted small secreted protein [Function unknown]; Region: COG5584 334390004340 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 334390004341 S-adenosylmethionine binding site [chemical binding]; other site 334390004342 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 334390004343 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 334390004344 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334390004345 Walker A/P-loop; other site 334390004346 ATP binding site [chemical binding]; other site 334390004347 Q-loop/lid; other site 334390004348 ABC transporter signature motif; other site 334390004349 Walker B; other site 334390004350 D-loop; other site 334390004351 H-loop/switch region; other site 334390004352 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 334390004353 HIT family signature motif; other site 334390004354 catalytic residue [active] 334390004355 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK02998 334390004356 SurA N-terminal domain; Region: SurA_N; pfam09312 334390004357 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 334390004358 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 334390004359 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 334390004360 generic binding surface II; other site 334390004361 generic binding surface I; other site 334390004362 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334390004363 Zn2+ binding site [ion binding]; other site 334390004364 Mg2+ binding site [ion binding]; other site 334390004365 Protein of unknown function (DUF964); Region: DUF964; cl01483 334390004366 Transglycosylase; Region: Transgly; pfam00912 334390004367 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 334390004368 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 334390004369 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 334390004370 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 334390004371 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 334390004372 active site 334390004373 HIGH motif; other site 334390004374 KMSK motif region; other site 334390004375 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 334390004376 tRNA binding surface [nucleotide binding]; other site 334390004377 anticodon binding site; other site 334390004378 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 334390004379 dihydropteroate synthase; Region: DHPS; TIGR01496 334390004380 substrate binding pocket [chemical binding]; other site 334390004381 dimer interface [polypeptide binding]; other site 334390004382 inhibitor binding site; inhibition site 334390004383 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 334390004384 active site 334390004385 dimerization interface [polypeptide binding]; other site 334390004386 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 334390004387 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334390004388 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334390004389 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 334390004390 GTP cyclohydrolase I; Provisional; Region: PLN03044 334390004391 active site 334390004392 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 334390004393 catalytic center binding site [active] 334390004394 ATP binding site [chemical binding]; other site 334390004395 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 334390004396 active site 334390004397 CAAX protease self-immunity; Region: Abi; pfam02517 334390004398 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334390004399 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390004400 DNA binding site [nucleotide binding] 334390004401 domain linker motif; other site 334390004402 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 334390004403 dimerization interface [polypeptide binding]; other site 334390004404 ligand binding site [chemical binding]; other site 334390004405 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 334390004406 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 334390004407 Substrate-binding site [chemical binding]; other site 334390004408 Substrate specificity [chemical binding]; other site 334390004409 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 334390004410 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 334390004411 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 334390004412 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 334390004413 Ligand Binding Site [chemical binding]; other site 334390004414 dipeptidase PepV; Reviewed; Region: PRK07318 334390004415 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 334390004416 active site 334390004417 metal binding site [ion binding]; metal-binding site 334390004418 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 334390004419 putative substrate binding site [chemical binding]; other site 334390004420 putative ATP binding site [chemical binding]; other site 334390004421 Domain of unknown function DUF302; Region: DUF302; pfam03625 334390004422 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 334390004423 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 334390004424 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 334390004425 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 334390004426 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 334390004427 HIGH motif; other site 334390004428 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 334390004429 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 334390004430 active site 334390004431 KMSKS motif; other site 334390004432 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 334390004433 tRNA binding surface [nucleotide binding]; other site 334390004434 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 334390004435 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 334390004436 active site 334390004437 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 334390004438 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 334390004439 putative catalytic cysteine [active] 334390004440 gamma-glutamyl kinase; Provisional; Region: PRK05429 334390004441 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 334390004442 nucleotide binding site [chemical binding]; other site 334390004443 homotetrameric interface [polypeptide binding]; other site 334390004444 putative phosphate binding site [ion binding]; other site 334390004445 putative allosteric binding site; other site 334390004446 S-adenosylmethionine synthetase; Validated; Region: PRK05250 334390004447 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 334390004448 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 334390004449 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 334390004450 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 334390004451 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 334390004452 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 334390004453 putative substrate translocation pore; other site 334390004454 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 334390004455 metal binding site 2 [ion binding]; metal-binding site 334390004456 putative DNA binding helix; other site 334390004457 metal binding site 1 [ion binding]; metal-binding site 334390004458 dimer interface [polypeptide binding]; other site 334390004459 structural Zn2+ binding site [ion binding]; other site 334390004460 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 334390004461 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 334390004462 dimerization interface [polypeptide binding]; other site 334390004463 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334390004464 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334390004465 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 334390004466 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 334390004467 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 334390004468 putative dimer interface [polypeptide binding]; other site 334390004469 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 334390004470 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 334390004471 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 334390004472 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 334390004473 tetramer interface [polypeptide binding]; other site 334390004474 catalytic Zn binding site [ion binding]; other site 334390004475 NADP binding site [chemical binding]; other site 334390004476 xanthine permease; Region: pbuX; TIGR03173 334390004477 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 334390004478 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 334390004479 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 334390004480 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 334390004481 Class III ribonucleotide reductase; Region: RNR_III; cd01675 334390004482 effector binding site; other site 334390004483 active site 334390004484 Zn binding site [ion binding]; other site 334390004485 glycine loop; other site 334390004486 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 334390004487 dimer interface [polypeptide binding]; other site 334390004488 conserved gate region; other site 334390004489 putative PBP binding loops; other site 334390004490 ABC-ATPase subunit interface; other site 334390004491 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 334390004492 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 334390004493 substrate binding pocket [chemical binding]; other site 334390004494 membrane-bound complex binding site; other site 334390004495 hinge residues; other site 334390004496 Protein of unknown function (DUF1797); Region: DUF1797; cl11550 334390004497 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 334390004498 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 334390004499 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 334390004500 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 334390004501 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 334390004502 putative ADP-binding pocket [chemical binding]; other site 334390004503 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 334390004504 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 334390004505 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 334390004506 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 334390004507 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 334390004508 dimerization domain swap beta strand [polypeptide binding]; other site 334390004509 regulatory protein interface [polypeptide binding]; other site 334390004510 active site 334390004511 regulatory phosphorylation site [posttranslational modification]; other site 334390004512 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 334390004513 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 334390004514 Walker A motif; other site 334390004515 ATP binding site [chemical binding]; other site 334390004516 Walker B motif; other site 334390004517 arginine finger; other site 334390004518 UvrB/uvrC motif; Region: UVR; pfam02151 334390004519 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 334390004520 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 334390004521 Walker A motif; other site 334390004522 ATP binding site [chemical binding]; other site 334390004523 Walker B motif; other site 334390004524 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 334390004525 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; cd02883 334390004526 nudix motif; other site 334390004527 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 334390004528 Isochorismatase family; Region: Isochorismatase; pfam00857 334390004529 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 334390004530 catalytic triad [active] 334390004531 conserved cis-peptide bond; other site 334390004532 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 334390004533 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 334390004534 active site 334390004535 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 334390004536 Predicted membrane protein [Function unknown]; Region: COG4684 334390004537 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 334390004538 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 334390004539 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 334390004540 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 334390004541 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 334390004542 EamA-like transporter family; Region: EamA; pfam00892 334390004543 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 334390004544 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 334390004545 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334390004546 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334390004547 Walker A/P-loop; other site 334390004548 ATP binding site [chemical binding]; other site 334390004549 Q-loop/lid; other site 334390004550 ABC transporter signature motif; other site 334390004551 Walker B; other site 334390004552 D-loop; other site 334390004553 H-loop/switch region; other site 334390004554 Predicted transcriptional regulators [Transcription]; Region: COG1725 334390004555 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334390004556 DNA-binding site [nucleotide binding]; DNA binding site 334390004557 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 334390004558 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 334390004559 NAD binding site [chemical binding]; other site 334390004560 substrate binding site [chemical binding]; other site 334390004561 homodimer interface [polypeptide binding]; other site 334390004562 active site 334390004563 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 334390004564 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 334390004565 active site 334390004566 Predicted integral membrane protein [Function unknown]; Region: COG5617 334390004567 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 334390004568 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 334390004569 G1 box; other site 334390004570 putative GEF interaction site [polypeptide binding]; other site 334390004571 GTP/Mg2+ binding site [chemical binding]; other site 334390004572 Switch I region; other site 334390004573 G2 box; other site 334390004574 G3 box; other site 334390004575 Switch II region; other site 334390004576 G4 box; other site 334390004577 G5 box; other site 334390004578 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 334390004579 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 334390004580 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 334390004581 Ligand binding site; other site 334390004582 Putative Catalytic site; other site 334390004583 DXD motif; other site 334390004584 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 334390004585 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 334390004586 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 334390004587 Ligand binding site; other site 334390004588 Putative Catalytic site; other site 334390004589 DXD motif; other site 334390004590 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 334390004591 Domain of unknown function DUF20; Region: UPF0118; pfam01594 334390004592 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 334390004593 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 334390004594 Ligand binding site; other site 334390004595 Putative Catalytic site; other site 334390004596 DXD motif; other site 334390004597 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 334390004598 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 334390004599 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 334390004600 NlpC/P60 family; Region: NLPC_P60; pfam00877 334390004601 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 334390004602 Transposase; Region: HTH_Tnp_1; cl17663 334390004603 putative transposase OrfB; Reviewed; Region: PHA02517 334390004604 HTH-like domain; Region: HTH_21; pfam13276 334390004605 Integrase core domain; Region: rve; pfam00665 334390004606 Integrase core domain; Region: rve_3; pfam13683 334390004607 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 334390004608 Acyltransferase family; Region: Acyl_transf_3; pfam01757 334390004609 putative glycosyl transferase; Provisional; Region: PRK10073 334390004610 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 334390004611 active site 334390004612 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 334390004613 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 334390004614 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 334390004615 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 334390004616 UDP-galactopyranose mutase; Region: GLF; pfam03275 334390004617 UDP-D-galactose:(glucosyl)lipopolysaccharide-1, 6-D-galactosyltransferase; Provisional; Region: PRK09922 334390004618 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 334390004619 putative ADP-binding pocket [chemical binding]; other site 334390004620 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390004621 Helix-turn-helix domain; Region: HTH_38; pfam13936 334390004622 Integrase core domain; Region: rve; pfam00665 334390004623 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390004624 MULE transposase domain; Region: MULE; pfam10551 334390004625 putative transposase OrfB; Reviewed; Region: PHA02517 334390004626 HTH-like domain; Region: HTH_21; pfam13276 334390004627 Integrase core domain; Region: rve; pfam00665 334390004628 Integrase core domain; Region: rve_3; pfam13683 334390004629 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 334390004630 Transposase; Region: HTH_Tnp_1; cl17663 334390004631 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390004632 Integrase core domain; Region: rve; pfam00665 334390004633 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 334390004634 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 334390004635 Bacterial sugar transferase; Region: Bac_transf; pfam02397 334390004636 recombination regulator RecX; Provisional; Region: recX; PRK14135 334390004637 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 334390004638 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 334390004639 Sulfatase; Region: Sulfatase; cl17466 334390004640 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 334390004641 active site 334390004642 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 334390004643 Predicted membrane protein [Function unknown]; Region: COG2246 334390004644 GtrA-like protein; Region: GtrA; pfam04138 334390004645 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 334390004646 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 334390004647 ATP binding site [chemical binding]; other site 334390004648 putative Mg++ binding site [ion binding]; other site 334390004649 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 334390004650 nucleotide binding region [chemical binding]; other site 334390004651 ATP-binding site [chemical binding]; other site 334390004652 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 334390004653 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 334390004654 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 334390004655 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 334390004656 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 334390004657 NAD(P) binding site [chemical binding]; other site 334390004658 LDH/MDH dimer interface [polypeptide binding]; other site 334390004659 substrate binding site [chemical binding]; other site 334390004660 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 334390004661 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 334390004662 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 334390004663 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334390004664 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 334390004665 Walker A/P-loop; other site 334390004666 ATP binding site [chemical binding]; other site 334390004667 ABC transporter signature motif; other site 334390004668 Walker B; other site 334390004669 D-loop; other site 334390004670 H-loop/switch region; other site 334390004671 ABC transporter; Region: ABC_tran_2; pfam12848 334390004672 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334390004673 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 334390004674 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 334390004675 dimerization interface [polypeptide binding]; other site 334390004676 DPS ferroxidase diiron center [ion binding]; other site 334390004677 ion pore; other site 334390004678 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 334390004679 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 334390004680 dimerization interface [polypeptide binding]; other site 334390004681 putative DNA binding site [nucleotide binding]; other site 334390004682 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334390004683 putative Zn2+ binding site [ion binding]; other site 334390004684 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 334390004685 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 334390004686 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 334390004687 DNA binding site [nucleotide binding] 334390004688 active site 334390004689 CAAX protease self-immunity; Region: Abi; pfam02517 334390004690 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 334390004691 S-adenosylmethionine binding site [chemical binding]; other site 334390004692 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 334390004693 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 334390004694 Predicted transcriptional regulator [Transcription]; Region: COG1959 334390004695 Transcriptional regulator; Region: Rrf2; cl17282 334390004696 multicopper oxidase; Provisional; Region: PRK10965 334390004697 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 334390004698 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 334390004699 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 334390004700 putative deacylase active site [active] 334390004701 Amidinotransferase; Region: Amidinotransf; cl12043 334390004702 Amidinotransferase; Region: Amidinotransf; cl12043 334390004703 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 334390004704 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 334390004705 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 334390004706 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 334390004707 HTH-like domain; Region: HTH_21; pfam13276 334390004708 Integrase core domain; Region: rve; pfam00665 334390004709 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390004710 MULE transposase domain; Region: MULE; pfam10551 334390004711 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 334390004712 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 334390004713 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334390004714 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 334390004715 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390004716 MULE transposase domain; Region: MULE; pfam10551 334390004717 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 334390004718 Transposase; Region: HTH_Tnp_1; cl17663 334390004719 putative transposase OrfB; Reviewed; Region: PHA02517 334390004720 HTH-like domain; Region: HTH_21; pfam13276 334390004721 Integrase core domain; Region: rve; pfam00665 334390004722 Integrase core domain; Region: rve_3; pfam13683 334390004723 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 334390004724 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 334390004725 ligand binding site [chemical binding]; other site 334390004726 flexible hinge region; other site 334390004727 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 334390004728 putative switch regulator; other site 334390004729 non-specific DNA interactions [nucleotide binding]; other site 334390004730 DNA binding site [nucleotide binding] 334390004731 sequence specific DNA binding site [nucleotide binding]; other site 334390004732 putative cAMP binding site [chemical binding]; other site 334390004733 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 334390004734 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 334390004735 metal-binding site [ion binding] 334390004736 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390004737 Helix-turn-helix domain; Region: HTH_38; pfam13936 334390004738 Integrase core domain; Region: rve; pfam00665 334390004739 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390004740 MULE transposase domain; Region: MULE; pfam10551 334390004741 TRAM domain; Region: TRAM; cl01282 334390004742 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 334390004743 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 334390004744 S-adenosylmethionine binding site [chemical binding]; other site 334390004745 putative lipid kinase; Reviewed; Region: PRK13055 334390004746 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 334390004747 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 334390004748 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 334390004749 GatB domain; Region: GatB_Yqey; smart00845 334390004750 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 334390004751 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 334390004752 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 334390004753 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 334390004754 putative dimer interface [polypeptide binding]; other site 334390004755 CamS sex pheromone cAM373 precursor; Region: CamS; pfam07537 334390004756 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 334390004757 putative dimer interface [polypeptide binding]; other site 334390004758 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 334390004759 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 334390004760 nucleotide binding pocket [chemical binding]; other site 334390004761 K-X-D-G motif; other site 334390004762 catalytic site [active] 334390004763 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 334390004764 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 334390004765 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 334390004766 Dimer interface [polypeptide binding]; other site 334390004767 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 334390004768 Part of AAA domain; Region: AAA_19; pfam13245 334390004769 Family description; Region: UvrD_C_2; pfam13538 334390004770 ATP-grasp domain; Region: ATP-grasp_4; cl17255 334390004771 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334390004772 active site 334390004773 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 334390004774 acetoin reductase; Validated; Region: PRK08643 334390004775 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 334390004776 NAD binding site [chemical binding]; other site 334390004777 homotetramer interface [polypeptide binding]; other site 334390004778 homodimer interface [polypeptide binding]; other site 334390004779 active site 334390004780 substrate binding site [chemical binding]; other site 334390004781 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 334390004782 putative catalytic site [active] 334390004783 putative metal binding site [ion binding]; other site 334390004784 putative phosphate binding site [ion binding]; other site 334390004785 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 334390004786 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 334390004787 23S rRNA interface [nucleotide binding]; other site 334390004788 L3 interface [polypeptide binding]; other site 334390004789 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 334390004790 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 334390004791 dimerization interface 3.5A [polypeptide binding]; other site 334390004792 active site 334390004793 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 334390004794 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 334390004795 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 334390004796 Walker A/P-loop; other site 334390004797 ATP binding site [chemical binding]; other site 334390004798 Q-loop/lid; other site 334390004799 ABC transporter signature motif; other site 334390004800 Walker B; other site 334390004801 D-loop; other site 334390004802 H-loop/switch region; other site 334390004803 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 334390004804 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 334390004805 Walker A/P-loop; other site 334390004806 ATP binding site [chemical binding]; other site 334390004807 Q-loop/lid; other site 334390004808 ABC transporter signature motif; other site 334390004809 Walker B; other site 334390004810 D-loop; other site 334390004811 H-loop/switch region; other site 334390004812 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 334390004813 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 334390004814 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 334390004815 alphaNTD homodimer interface [polypeptide binding]; other site 334390004816 alphaNTD - beta interaction site [polypeptide binding]; other site 334390004817 alphaNTD - beta' interaction site [polypeptide binding]; other site 334390004818 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 334390004819 30S ribosomal protein S11; Validated; Region: PRK05309 334390004820 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 334390004821 30S ribosomal protein S13; Region: bact_S13; TIGR03631 334390004822 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 334390004823 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 334390004824 rRNA binding site [nucleotide binding]; other site 334390004825 predicted 30S ribosome binding site; other site 334390004826 adenylate kinase; Reviewed; Region: adk; PRK00279 334390004827 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 334390004828 AMP-binding site [chemical binding]; other site 334390004829 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 334390004830 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 334390004831 SecY translocase; Region: SecY; pfam00344 334390004832 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 334390004833 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 334390004834 23S rRNA binding site [nucleotide binding]; other site 334390004835 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 334390004836 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 334390004837 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 334390004838 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 334390004839 5S rRNA interface [nucleotide binding]; other site 334390004840 L27 interface [polypeptide binding]; other site 334390004841 23S rRNA interface [nucleotide binding]; other site 334390004842 L5 interface [polypeptide binding]; other site 334390004843 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 334390004844 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 334390004845 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 334390004846 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 334390004847 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 334390004848 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 334390004849 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 334390004850 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 334390004851 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 334390004852 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 334390004853 RNA binding site [nucleotide binding]; other site 334390004854 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 334390004855 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 334390004856 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 334390004857 23S rRNA interface [nucleotide binding]; other site 334390004858 putative translocon interaction site; other site 334390004859 signal recognition particle (SRP54) interaction site; other site 334390004860 L23 interface [polypeptide binding]; other site 334390004861 trigger factor interaction site; other site 334390004862 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 334390004863 23S rRNA interface [nucleotide binding]; other site 334390004864 5S rRNA interface [nucleotide binding]; other site 334390004865 putative antibiotic binding site [chemical binding]; other site 334390004866 L25 interface [polypeptide binding]; other site 334390004867 L27 interface [polypeptide binding]; other site 334390004868 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 334390004869 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 334390004870 G-X-X-G motif; other site 334390004871 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 334390004872 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 334390004873 putative translocon binding site; other site 334390004874 protein-rRNA interface [nucleotide binding]; other site 334390004875 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 334390004876 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 334390004877 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 334390004878 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 334390004879 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 334390004880 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 334390004881 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 334390004882 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 334390004883 elongation factor G; Reviewed; Region: PRK12739 334390004884 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 334390004885 G1 box; other site 334390004886 putative GEF interaction site [polypeptide binding]; other site 334390004887 GTP/Mg2+ binding site [chemical binding]; other site 334390004888 Switch I region; other site 334390004889 G2 box; other site 334390004890 G3 box; other site 334390004891 Switch II region; other site 334390004892 G4 box; other site 334390004893 G5 box; other site 334390004894 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 334390004895 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 334390004896 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 334390004897 30S ribosomal protein S7; Validated; Region: PRK05302 334390004898 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 334390004899 S17 interaction site [polypeptide binding]; other site 334390004900 S8 interaction site; other site 334390004901 16S rRNA interaction site [nucleotide binding]; other site 334390004902 streptomycin interaction site [chemical binding]; other site 334390004903 23S rRNA interaction site [nucleotide binding]; other site 334390004904 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 334390004905 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 334390004906 Predicted membrane protein [Function unknown]; Region: COG3371 334390004907 Protein of unknown function (DUF998); Region: DUF998; pfam06197 334390004908 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 334390004909 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 334390004910 catalytic triad [active] 334390004911 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 334390004912 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 334390004913 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 334390004914 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 334390004915 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 334390004916 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 334390004917 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 334390004918 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 334390004919 G-loop; other site 334390004920 DNA binding site [nucleotide binding] 334390004921 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 334390004922 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 334390004923 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 334390004924 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 334390004925 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 334390004926 RPB1 interaction site [polypeptide binding]; other site 334390004927 RPB12 interaction site [polypeptide binding]; other site 334390004928 RPB10 interaction site [polypeptide binding]; other site 334390004929 RPB11 interaction site [polypeptide binding]; other site 334390004930 RPB3 interaction site [polypeptide binding]; other site 334390004931 RPB12 interaction site [polypeptide binding]; other site 334390004932 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334390004933 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334390004934 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 334390004935 Clp amino terminal domain; Region: Clp_N; pfam02861 334390004936 Clp amino terminal domain; Region: Clp_N; pfam02861 334390004937 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 334390004938 Walker A motif; other site 334390004939 ATP binding site [chemical binding]; other site 334390004940 Walker B motif; other site 334390004941 arginine finger; other site 334390004942 UvrB/uvrC motif; Region: UVR; pfam02151 334390004943 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 334390004944 Walker A motif; other site 334390004945 ATP binding site [chemical binding]; other site 334390004946 Walker B motif; other site 334390004947 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 334390004948 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 334390004949 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 334390004950 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 334390004951 NAD binding site [chemical binding]; other site 334390004952 substrate binding site [chemical binding]; other site 334390004953 catalytic Zn binding site [ion binding]; other site 334390004954 tetramer interface [polypeptide binding]; other site 334390004955 structural Zn binding site [ion binding]; other site 334390004956 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390004957 Helix-turn-helix domain; Region: HTH_38; pfam13936 334390004958 Integrase core domain; Region: rve; pfam00665 334390004959 B3/4 domain; Region: B3_4; pfam03483 334390004960 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 334390004961 Thiamine-precursor transporter protein (ThiW); Region: ThiW; pfam09512 334390004962 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 334390004963 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 334390004964 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 334390004965 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 334390004966 Substrate-binding site [chemical binding]; other site 334390004967 Substrate specificity [chemical binding]; other site 334390004968 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 334390004969 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334390004970 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 334390004971 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 334390004972 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 334390004973 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 334390004974 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 334390004975 active site 334390004976 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 334390004977 Uncharacterized conserved protein [Function unknown]; Region: COG2966 334390004978 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 334390004979 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 334390004980 DNA-binding site [nucleotide binding]; DNA binding site 334390004981 RNA-binding motif; other site 334390004982 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 334390004983 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 334390004984 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 334390004985 FeoA domain; Region: FeoA; pfam04023 334390004986 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 334390004987 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 334390004988 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 334390004989 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 334390004990 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 334390004991 Ligand Binding Site [chemical binding]; other site 334390004992 CAAX protease self-immunity; Region: Abi; pfam02517 334390004993 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 334390004994 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 334390004995 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 334390004996 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 334390004997 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 334390004998 DNA binding residues [nucleotide binding] 334390004999 putative dimer interface [polypeptide binding]; other site 334390005000 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 334390005001 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334390005002 putative substrate translocation pore; other site 334390005003 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 334390005004 L-arabinose isomerase; Provisional; Region: PRK02929 334390005005 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 334390005006 hexamer (dimer of trimers) interface [polypeptide binding]; other site 334390005007 substrate binding site [chemical binding]; other site 334390005008 trimer interface [polypeptide binding]; other site 334390005009 Mn binding site [ion binding]; other site 334390005010 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 334390005011 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 334390005012 putative substrate translocation pore; other site 334390005013 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 334390005014 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 334390005015 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334390005016 DNA-binding site [nucleotide binding]; DNA binding site 334390005017 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334390005018 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 334390005019 putative dimerization interface [polypeptide binding]; other site 334390005020 putative ligand binding site [chemical binding]; other site 334390005021 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 334390005022 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; cl00214 334390005023 intersubunit interface [polypeptide binding]; other site 334390005024 active site 334390005025 Zn2+ binding site [ion binding]; other site 334390005026 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 334390005027 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 334390005028 putative N- and C-terminal domain interface [polypeptide binding]; other site 334390005029 putative active site [active] 334390005030 MgATP binding site [chemical binding]; other site 334390005031 catalytic site [active] 334390005032 metal binding site [ion binding]; metal-binding site 334390005033 putative carbohydrate binding site [chemical binding]; other site 334390005034 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 334390005035 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 334390005036 active site 334390005037 Predicted integral membrane protein [Function unknown]; Region: COG0392 334390005038 Uncharacterized conserved protein [Function unknown]; Region: COG2898 334390005039 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 334390005040 DJ-1 family protein; Region: not_thiJ; TIGR01383 334390005041 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 334390005042 conserved cys residue [active] 334390005043 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 334390005044 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 334390005045 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 334390005046 active site 334390005047 Uncharacterized conserved protein [Function unknown]; Region: COG2966 334390005048 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 334390005049 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 334390005050 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334390005051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334390005052 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 334390005053 dimerization interface [polypeptide binding]; other site 334390005054 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390005055 MULE transposase domain; Region: MULE; pfam10551 334390005056 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390005057 Integrase core domain; Region: rve; pfam00665 334390005058 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 334390005059 HTH-like domain; Region: HTH_21; pfam13276 334390005060 Integrase core domain; Region: rve; pfam00665 334390005061 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 334390005062 Helix-turn-helix domain; Region: HTH_28; pfam13518 334390005063 putative transposase OrfB; Reviewed; Region: PHA02517 334390005064 HTH-like domain; Region: HTH_21; pfam13276 334390005065 Integrase core domain; Region: rve; pfam00665 334390005066 Integrase core domain; Region: rve_3; pfam13683 334390005067 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 334390005068 Transposase; Region: HTH_Tnp_1; cl17663 334390005069 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390005070 Helix-turn-helix domain; Region: HTH_38; pfam13936 334390005071 Integrase core domain; Region: rve; pfam00665 334390005072 EcsC protein family; Region: EcsC; pfam12787 334390005073 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390005074 Helix-turn-helix domain; Region: HTH_38; pfam13936 334390005075 Integrase core domain; Region: rve; pfam00665 334390005076 Helix-turn-helix domain; Region: HTH_28; pfam13518 334390005077 HTH-like domain; Region: HTH_21; pfam13276 334390005078 Integrase core domain; Region: rve; pfam00665 334390005079 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 334390005080 active site 334390005081 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 334390005082 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 334390005083 active site turn [active] 334390005084 phosphorylation site [posttranslational modification] 334390005085 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 334390005086 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 334390005087 HPr interaction site; other site 334390005088 glycerol kinase (GK) interaction site [polypeptide binding]; other site 334390005089 active site 334390005090 phosphorylation site [posttranslational modification] 334390005091 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 334390005092 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_2; TIGR02822 334390005093 putative NAD(P) binding site [chemical binding]; other site 334390005094 putative substrate binding site [chemical binding]; other site 334390005095 catalytic Zn binding site [ion binding]; other site 334390005096 structural Zn binding site [ion binding]; other site 334390005097 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 334390005098 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 334390005099 substrate binding [chemical binding]; other site 334390005100 active site 334390005101 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 334390005102 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 334390005103 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 334390005104 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334390005105 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334390005106 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 334390005107 dimerization interface [polypeptide binding]; other site 334390005108 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 334390005109 inner membrane transporter YjeM; Provisional; Region: PRK15238 334390005110 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 334390005111 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 334390005112 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 334390005113 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 334390005114 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 334390005115 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 334390005116 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 334390005117 active site 334390005118 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 334390005119 homodimer interface [polypeptide binding]; other site 334390005120 chemical substrate binding site [chemical binding]; other site 334390005121 oligomer interface [polypeptide binding]; other site 334390005122 metal binding site [ion binding]; metal-binding site 334390005123 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 334390005124 PLD-like domain; Region: PLDc_2; pfam13091 334390005125 putative homodimer interface [polypeptide binding]; other site 334390005126 putative active site [active] 334390005127 catalytic site [active] 334390005128 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 334390005129 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 334390005130 ATP binding site [chemical binding]; other site 334390005131 putative Mg++ binding site [ion binding]; other site 334390005132 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 334390005133 nucleotide binding region [chemical binding]; other site 334390005134 ATP-binding site [chemical binding]; other site 334390005135 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 334390005136 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 334390005137 active site 334390005138 8-oxo-dGMP binding site [chemical binding]; other site 334390005139 nudix motif; other site 334390005140 metal binding site [ion binding]; metal-binding site 334390005141 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 334390005142 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 334390005143 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 334390005144 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 334390005145 putative substrate translocation pore; other site 334390005146 WYL domain; Region: WYL; pfam13280 334390005147 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 334390005148 S-ribosylhomocysteinase; Provisional; Region: PRK02260 334390005149 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 334390005150 substrate binding site [chemical binding]; other site 334390005151 THF binding site; other site 334390005152 zinc-binding site [ion binding]; other site 334390005153 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 334390005154 dimer interface [polypeptide binding]; other site 334390005155 active site 334390005156 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 334390005157 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 334390005158 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334390005159 Coenzyme A binding pocket [chemical binding]; other site 334390005160 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 334390005161 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 334390005162 active site 334390005163 DNA binding site [nucleotide binding] 334390005164 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 334390005165 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 334390005166 DNA binding residues [nucleotide binding] 334390005167 putative dimer interface [polypeptide binding]; other site 334390005168 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 334390005169 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 334390005170 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 334390005171 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 334390005172 carboxyltransferase (CT) interaction site; other site 334390005173 biotinylation site [posttranslational modification]; other site 334390005174 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 334390005175 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 334390005176 ATP-grasp domain; Region: ATP-grasp_4; cl17255 334390005177 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 334390005178 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 334390005179 putative active site [active] 334390005180 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 334390005181 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 334390005182 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 334390005183 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334390005184 putative substrate translocation pore; other site 334390005185 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 334390005186 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 334390005187 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334390005188 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 334390005189 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 334390005190 catalytic residues [active] 334390005191 Predicted permeases [General function prediction only]; Region: COG0679 334390005192 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334390005193 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334390005194 Probable transposase; Region: OrfB_IS605; pfam01385 334390005195 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 334390005196 4-aminobutyrate aminotransferase; Provisional; Region: PRK08593 334390005197 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 334390005198 inhibitor-cofactor binding pocket; inhibition site 334390005199 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390005200 catalytic residue [active] 334390005201 amino acid transporter; Region: 2A0306; TIGR00909 334390005202 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 334390005203 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 334390005204 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 334390005205 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 334390005206 active site 334390005207 8-oxo-dGMP binding site [chemical binding]; other site 334390005208 nudix motif; other site 334390005209 metal binding site [ion binding]; metal-binding site 334390005210 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 334390005211 active site 334390005212 argininosuccinate lyase; Provisional; Region: PRK00855 334390005213 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 334390005214 active sites [active] 334390005215 tetramer interface [polypeptide binding]; other site 334390005216 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 334390005217 argininosuccinate synthase; Provisional; Region: PRK13820 334390005218 ANP binding site [chemical binding]; other site 334390005219 Substrate Binding Site II [chemical binding]; other site 334390005220 Substrate Binding Site I [chemical binding]; other site 334390005221 conserved hypothetical integral membrane protein; Region: TIGR03766 334390005222 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334390005223 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 334390005224 FMN-binding domain; Region: FMN_bind; cl01081 334390005225 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334390005226 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334390005227 Walker A/P-loop; other site 334390005228 ATP binding site [chemical binding]; other site 334390005229 Q-loop/lid; other site 334390005230 ABC transporter signature motif; other site 334390005231 Walker B; other site 334390005232 D-loop; other site 334390005233 H-loop/switch region; other site 334390005234 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 334390005235 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 334390005236 FtsX-like permease family; Region: FtsX; pfam02687 334390005237 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334390005238 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334390005239 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 334390005240 TPP-binding site; other site 334390005241 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 334390005242 Probable transposase; Region: OrfB_IS605; pfam01385 334390005243 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 334390005244 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 334390005245 Transposase IS200 like; Region: Y1_Tnp; pfam01797 334390005246 hypothetical protein; Provisional; Region: PRK00967 334390005247 Nitronate monooxygenase; Region: NMO; pfam03060 334390005248 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 334390005249 FMN binding site [chemical binding]; other site 334390005250 substrate binding site [chemical binding]; other site 334390005251 putative catalytic residue [active] 334390005252 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 334390005253 dimerization interface [polypeptide binding]; other site 334390005254 putative DNA binding site [nucleotide binding]; other site 334390005255 putative Zn2+ binding site [ion binding]; other site 334390005256 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 334390005257 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 334390005258 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 334390005259 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 334390005260 Soluble P-type ATPase [General function prediction only]; Region: COG4087 334390005261 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 334390005262 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 334390005263 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 334390005264 synthetase active site [active] 334390005265 NTP binding site [chemical binding]; other site 334390005266 metal binding site [ion binding]; metal-binding site 334390005267 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390005268 MULE transposase domain; Region: MULE; pfam10551 334390005269 pantothenate kinase; Provisional; Region: PRK05439 334390005270 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 334390005271 ATP-binding site [chemical binding]; other site 334390005272 CoA-binding site [chemical binding]; other site 334390005273 Mg2+-binding site [ion binding]; other site 334390005274 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 334390005275 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 334390005276 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 334390005277 classical (c) SDRs; Region: SDR_c; cd05233 334390005278 NAD(P) binding site [chemical binding]; other site 334390005279 active site 334390005280 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 334390005281 Sulfatase; Region: Sulfatase; pfam00884 334390005282 EamA-like transporter family; Region: EamA; pfam00892 334390005283 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 334390005284 EamA-like transporter family; Region: EamA; pfam00892 334390005285 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 334390005286 Part of AAA domain; Region: AAA_19; pfam13245 334390005287 Family description; Region: UvrD_C_2; pfam13538 334390005288 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 334390005289 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 334390005290 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 334390005291 catalytic core [active] 334390005292 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 334390005293 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 334390005294 HflX GTPase family; Region: HflX; cd01878 334390005295 G1 box; other site 334390005296 GTP/Mg2+ binding site [chemical binding]; other site 334390005297 Switch I region; other site 334390005298 G2 box; other site 334390005299 G3 box; other site 334390005300 Switch II region; other site 334390005301 G4 box; other site 334390005302 G5 box; other site 334390005303 N-acylamino acid racemase (NAAAR), an octameric enzyme that catalyzes the racemization of N-acylamino acids. NAAARs act on a broad range of N-acylamino acids rather than amino acids. Enantiopure amino acids are of industrial interest as chiral building...; Region: NAAAR; cd03317 334390005304 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 334390005305 active site 334390005306 octamer interface [polypeptide binding]; other site 334390005307 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 334390005308 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 334390005309 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334390005310 Coenzyme A binding pocket [chemical binding]; other site 334390005311 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 334390005312 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 334390005313 Predicted membrane protein [Function unknown]; Region: COG1511 334390005314 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 334390005315 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 334390005316 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334390005317 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334390005318 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 334390005319 active site 334390005320 catalytic residues [active] 334390005321 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 334390005322 metal binding site 2 [ion binding]; metal-binding site 334390005323 putative DNA binding helix; other site 334390005324 metal binding site 1 [ion binding]; metal-binding site 334390005325 dimer interface [polypeptide binding]; other site 334390005326 structural Zn2+ binding site [ion binding]; other site 334390005327 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 334390005328 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 334390005329 catalytic site [active] 334390005330 G-X2-G-X-G-K; other site 334390005331 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Ap4A hydrolases are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_human_like; cd03428 334390005332 active site 334390005333 Ap4A binding cleft/pocket [chemical binding]; other site 334390005334 P4 phosphate binding site; other site 334390005335 nudix motif; other site 334390005336 putative P2/P3 phosphate binding site [ion binding]; other site 334390005337 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 334390005338 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; cl07696 334390005339 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 334390005340 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 334390005341 TAP-like protein; Region: Abhydrolase_4; pfam08386 334390005342 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 334390005343 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 334390005344 motif II; other site 334390005345 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 334390005346 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 334390005347 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 334390005348 dimer interface [polypeptide binding]; other site 334390005349 putative radical transfer pathway; other site 334390005350 diiron center [ion binding]; other site 334390005351 tyrosyl radical; other site 334390005352 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 334390005353 dimer interface [polypeptide binding]; other site 334390005354 putative radical transfer pathway; other site 334390005355 diiron center [ion binding]; other site 334390005356 tyrosyl radical; other site 334390005357 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 334390005358 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 334390005359 Class I ribonucleotide reductase; Region: RNR_I; cd01679 334390005360 active site 334390005361 dimer interface [polypeptide binding]; other site 334390005362 catalytic residues [active] 334390005363 effector binding site; other site 334390005364 R2 peptide binding site; other site 334390005365 NrdI Flavodoxin like; Region: Flavodoxin_NdrI; cl17293 334390005366 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 334390005367 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 334390005368 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 334390005369 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 334390005370 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334390005371 Walker A/P-loop; other site 334390005372 ATP binding site [chemical binding]; other site 334390005373 Q-loop/lid; other site 334390005374 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334390005375 ABC transporter signature motif; other site 334390005376 Walker B; other site 334390005377 D-loop; other site 334390005378 ABC transporter; Region: ABC_tran_2; pfam12848 334390005379 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334390005380 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 334390005381 zinc binding site [ion binding]; other site 334390005382 putative ligand binding site [chemical binding]; other site 334390005383 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 334390005384 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 334390005385 TM-ABC transporter signature motif; other site 334390005386 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 334390005387 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334390005388 Walker A/P-loop; other site 334390005389 ATP binding site [chemical binding]; other site 334390005390 Q-loop/lid; other site 334390005391 ABC transporter signature motif; other site 334390005392 Walker B; other site 334390005393 D-loop; other site 334390005394 H-loop/switch region; other site 334390005395 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 334390005396 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 334390005397 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 334390005398 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 334390005399 ROK family; Region: ROK; pfam00480 334390005400 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 334390005401 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 334390005402 active site 334390005403 dimer interface [polypeptide binding]; other site 334390005404 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 334390005405 dimer interface [polypeptide binding]; other site 334390005406 active site 334390005407 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334390005408 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390005409 DNA binding site [nucleotide binding] 334390005410 domain linker motif; other site 334390005411 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 334390005412 dimerization interface [polypeptide binding]; other site 334390005413 ligand binding site [chemical binding]; other site 334390005414 sodium binding site [ion binding]; other site 334390005415 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 334390005416 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 334390005417 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 334390005418 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 334390005419 substrate binding site [chemical binding]; other site 334390005420 dimer interface [polypeptide binding]; other site 334390005421 ATP binding site [chemical binding]; other site 334390005422 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 334390005423 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 334390005424 catalytic residues [active] 334390005425 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 334390005426 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 334390005427 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 334390005428 active site 334390005429 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 334390005430 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 334390005431 Cl binding site [ion binding]; other site 334390005432 oligomer interface [polypeptide binding]; other site 334390005433 xanthine permease; Region: pbuX; TIGR03173 334390005434 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 334390005435 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390005436 NAD(P) binding site [chemical binding]; other site 334390005437 active site 334390005438 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 334390005439 catalytic core [active] 334390005440 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 334390005441 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 334390005442 Sulfatase; Region: Sulfatase; pfam00884 334390005443 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 334390005444 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 334390005445 ligand binding site [chemical binding]; other site 334390005446 flexible hinge region; other site 334390005447 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 334390005448 putative switch regulator; other site 334390005449 non-specific DNA interactions [nucleotide binding]; other site 334390005450 DNA binding site [nucleotide binding] 334390005451 sequence specific DNA binding site [nucleotide binding]; other site 334390005452 putative cAMP binding site [chemical binding]; other site 334390005453 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 334390005454 dinuclear metal binding motif [ion binding]; other site 334390005455 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 334390005456 metal-binding site [ion binding] 334390005457 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 334390005458 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 334390005459 Soluble P-type ATPase [General function prediction only]; Region: COG4087 334390005460 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 334390005461 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 334390005462 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334390005463 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 334390005464 active site 334390005465 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 334390005466 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 334390005467 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 334390005468 Walker A/P-loop; other site 334390005469 ATP binding site [chemical binding]; other site 334390005470 Q-loop/lid; other site 334390005471 ABC transporter signature motif; other site 334390005472 Walker B; other site 334390005473 D-loop; other site 334390005474 H-loop/switch region; other site 334390005475 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 334390005476 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334390005477 Walker A/P-loop; other site 334390005478 ATP binding site [chemical binding]; other site 334390005479 Q-loop/lid; other site 334390005480 ABC transporter signature motif; other site 334390005481 Walker B; other site 334390005482 D-loop; other site 334390005483 H-loop/switch region; other site 334390005484 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 334390005485 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 334390005486 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 334390005487 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 334390005488 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 334390005489 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 334390005490 OsmC-like protein; Region: OsmC; cl00767 334390005491 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 334390005492 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 334390005493 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334390005494 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 334390005495 non-specific DNA binding site [nucleotide binding]; other site 334390005496 salt bridge; other site 334390005497 sequence-specific DNA binding site [nucleotide binding]; other site 334390005498 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 334390005499 Ligand Binding Site [chemical binding]; other site 334390005500 ANTAR domain; Region: ANTAR; cl04297 334390005501 HflC protein; Region: hflC; TIGR01932 334390005502 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 334390005503 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 334390005504 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 334390005505 putative substrate translocation pore; other site 334390005506 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 334390005507 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 334390005508 TPP-binding site [chemical binding]; other site 334390005509 dimer interface [polypeptide binding]; other site 334390005510 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 334390005511 PYR/PP interface [polypeptide binding]; other site 334390005512 dimer interface [polypeptide binding]; other site 334390005513 TPP binding site [chemical binding]; other site 334390005514 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 334390005515 putative translaldolase; Provisional; Region: PRK12376 334390005516 catalytic residue [active] 334390005517 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 334390005518 Helix-turn-helix domain; Region: HTH_28; pfam13518 334390005519 Helix-turn-helix domain; Region: HTH_28; pfam13518 334390005520 putative transposase OrfB; Reviewed; Region: PHA02517 334390005521 HTH-like domain; Region: HTH_21; pfam13276 334390005522 Integrase core domain; Region: rve; pfam00665 334390005523 Integrase core domain; Region: rve_2; pfam13333 334390005524 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 334390005525 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334390005526 active site 334390005527 dimer interface [polypeptide binding]; other site 334390005528 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 334390005529 Transposase; Region: DDE_Tnp_ISL3; pfam01610 334390005530 HTH-like domain; Region: HTH_21; pfam13276 334390005531 Integrase core domain; Region: rve; pfam00665 334390005532 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 334390005533 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 334390005534 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 334390005535 Ligand Binding Site [chemical binding]; other site 334390005536 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 334390005537 amphipathic channel; other site 334390005538 Asn-Pro-Ala signature motifs; other site 334390005539 Protein of unknown function DUF111; Region: DUF111; cl03398 334390005540 Protein of unknown function DUF111; Region: DUF111; pfam01969 334390005541 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 334390005542 AIR carboxylase; Region: AIRC; smart01001 334390005543 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 334390005544 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 334390005545 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 334390005546 ligand binding site [chemical binding]; other site 334390005547 flexible hinge region; other site 334390005548 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 334390005549 non-specific DNA interactions [nucleotide binding]; other site 334390005550 DNA binding site [nucleotide binding] 334390005551 sequence specific DNA binding site [nucleotide binding]; other site 334390005552 putative cAMP binding site [chemical binding]; other site 334390005553 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 334390005554 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 334390005555 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 334390005556 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 334390005557 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 334390005558 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 334390005559 putative substrate translocation pore; other site 334390005560 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 334390005561 D-ribose pyranase; Provisional; Region: PRK11797 334390005562 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 334390005563 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 334390005564 substrate binding site [chemical binding]; other site 334390005565 dimer interface [polypeptide binding]; other site 334390005566 ATP binding site [chemical binding]; other site 334390005567 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 334390005568 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 334390005569 DNA-binding interface [nucleotide binding]; DNA binding site 334390005570 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 334390005571 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 334390005572 intersubunit interface [polypeptide binding]; other site 334390005573 active site 334390005574 catalytic residue [active] 334390005575 deoxyribose mutarotase_like; Region: deoxyribose_mutarotase; cd09269 334390005576 active site 334390005577 catalytic residues [active] 334390005578 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 334390005579 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 334390005580 substrate binding site [chemical binding]; other site 334390005581 dimer interface [polypeptide binding]; other site 334390005582 ATP binding site [chemical binding]; other site 334390005583 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 334390005584 PTS system sugar-specific permease component; Region: EIIC-GAT; pfam03611 334390005585 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334390005586 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390005587 DNA binding site [nucleotide binding] 334390005588 domain linker motif; other site 334390005589 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 334390005590 inner membrane transporter YjeM; Provisional; Region: PRK15238 334390005591 putative phosphoketolase; Provisional; Region: PRK05261 334390005592 XFP N-terminal domain; Region: XFP_N; pfam09364 334390005593 XFP C-terminal domain; Region: XFP_C; pfam09363 334390005594 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 334390005595 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 334390005596 active site 334390005597 motif I; other site 334390005598 motif II; other site 334390005599 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 334390005600 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334390005601 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 334390005602 DNA-binding site [nucleotide binding]; DNA binding site 334390005603 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 334390005604 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 334390005605 putative deacylase active site [active] 334390005606 Peptidase family C69; Region: Peptidase_C69; pfam03577 334390005607 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 334390005608 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 334390005609 Domain of unknown function DUF21; Region: DUF21; pfam01595 334390005610 FOG: CBS domain [General function prediction only]; Region: COG0517 334390005611 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 334390005612 Transporter associated domain; Region: CorC_HlyC; smart01091 334390005613 NrdI Flavodoxin like; Region: Flavodoxin_NdrI; cl17293 334390005614 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 334390005615 dimer interface [polypeptide binding]; other site 334390005616 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 334390005617 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; cl17904 334390005618 putative substrate translocation pore; other site 334390005619 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 334390005620 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 334390005621 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 334390005622 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 334390005623 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 334390005624 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 334390005625 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 334390005626 Ligand Binding Site [chemical binding]; other site 334390005627 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 334390005628 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 334390005629 putative DNA binding site [nucleotide binding]; other site 334390005630 putative Zn2+ binding site [ion binding]; other site 334390005631 AsnC family; Region: AsnC_trans_reg; pfam01037 334390005632 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 334390005633 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 334390005634 NADP binding site [chemical binding]; other site 334390005635 homodimer interface [polypeptide binding]; other site 334390005636 active site 334390005637 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334390005638 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390005639 DNA binding site [nucleotide binding] 334390005640 domain linker motif; other site 334390005641 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 334390005642 putative dimerization interface [polypeptide binding]; other site 334390005643 putative ligand binding site [chemical binding]; other site 334390005644 oligoendopeptidase F; Region: pepF; TIGR00181 334390005645 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 334390005646 active site 334390005647 Zn binding site [ion binding]; other site 334390005648 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 334390005649 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 334390005650 Predicted membrane protein [Function unknown]; Region: COG2364 334390005651 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 334390005652 HTH-like domain; Region: HTH_21; pfam13276 334390005653 Integrase core domain; Region: rve; pfam00665 334390005654 Integrase core domain; Region: rve_3; cl15866 334390005655 D-lactate dehydrogenase; Provisional; Region: PRK11183 334390005656 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 334390005657 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390005658 MULE transposase domain; Region: MULE; pfam10551 334390005659 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 334390005660 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 334390005661 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 334390005662 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 334390005663 Sel1 repeat; Region: Sel1; cl02723 334390005664 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 334390005665 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 334390005666 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 334390005667 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 334390005668 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 334390005669 Melibiase; Region: Melibiase; pfam02065 334390005670 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390005671 MULE transposase domain; Region: MULE; pfam10551 334390005672 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390005673 MULE transposase domain; Region: MULE; pfam10551 334390005674 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390005675 Helix-turn-helix domain; Region: HTH_38; pfam13936 334390005676 Integrase core domain; Region: rve; pfam00665 334390005677 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390005678 MULE transposase domain; Region: MULE; pfam10551 334390005679 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 334390005680 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 334390005681 Presynaptic Site I dimer interface [polypeptide binding]; other site 334390005682 catalytic residues [active] 334390005683 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 334390005684 Synaptic Flat tetramer interface [polypeptide binding]; other site 334390005685 Synaptic Site I dimer interface [polypeptide binding]; other site 334390005686 DNA binding site [nucleotide binding] 334390005687 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 334390005688 DNA-binding interface [nucleotide binding]; DNA binding site 334390005689 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334390005690 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334390005691 Walker A/P-loop; other site 334390005692 ATP binding site [chemical binding]; other site 334390005693 Q-loop/lid; other site 334390005694 ABC transporter signature motif; other site 334390005695 Walker B; other site 334390005696 D-loop; other site 334390005697 H-loop/switch region; other site 334390005698 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390005699 MULE transposase domain; Region: MULE; pfam10551 334390005700 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 334390005701 aspartate-rich region 2; other site 334390005702 substrate-Mg2+ binding site; other site 334390005703 HTH-like domain; Region: HTH_21; pfam13276 334390005704 Integrase core domain; Region: rve; pfam00665 334390005705 Integrase core domain; Region: rve; pfam00665 334390005706 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334390005707 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390005708 DNA binding site [nucleotide binding] 334390005709 domain linker motif; other site 334390005710 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 334390005711 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 334390005712 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 334390005713 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 334390005714 galactokinase; Provisional; Region: PRK05322 334390005715 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 334390005716 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 334390005717 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 334390005718 active site 334390005719 catalytic triad [active] 334390005720 oxyanion hole [active] 334390005721 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 334390005722 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 334390005723 substrate binding site [chemical binding]; other site 334390005724 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 334390005725 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 334390005726 Walker A/P-loop; other site 334390005727 ATP binding site [chemical binding]; other site 334390005728 Q-loop/lid; other site 334390005729 ABC transporter signature motif; other site 334390005730 Walker B; other site 334390005731 D-loop; other site 334390005732 H-loop/switch region; other site 334390005733 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 334390005734 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 334390005735 dimer interface [polypeptide binding]; other site 334390005736 conserved gate region; other site 334390005737 putative PBP binding loops; other site 334390005738 ABC-ATPase subunit interface; other site 334390005739 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 334390005740 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 334390005741 substrate binding pocket [chemical binding]; other site 334390005742 membrane-bound complex binding site; other site 334390005743 hinge residues; other site 334390005744 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 334390005745 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 334390005746 putative ligand binding site [chemical binding]; other site 334390005747 putative NAD binding site [chemical binding]; other site 334390005748 catalytic site [active] 334390005749 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 334390005750 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 334390005751 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 334390005752 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 334390005753 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 334390005754 putative ADP-ribose binding site [chemical binding]; other site 334390005755 putative active site [active] 334390005756 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 334390005757 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 334390005758 active site 334390005759 Zn binding site [ion binding]; other site 334390005760 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 334390005761 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 334390005762 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 334390005763 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 334390005764 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 334390005765 Walker A motif; other site 334390005766 ATP binding site [chemical binding]; other site 334390005767 Walker B motif; other site 334390005768 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 334390005769 active site 334390005770 DNA binding site [nucleotide binding] 334390005771 Uncharacterized conserved protein [Function unknown]; Region: COG3189 334390005772 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 334390005773 Uncharacterized conserved protein [Function unknown]; Region: COG0062 334390005774 elongation factor P; Validated; Region: PRK00529 334390005775 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 334390005776 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 334390005777 RNA binding site [nucleotide binding]; other site 334390005778 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 334390005779 RNA binding site [nucleotide binding]; other site 334390005780 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334390005781 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390005782 DNA binding site [nucleotide binding] 334390005783 domain linker motif; other site 334390005784 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 334390005785 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 334390005786 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 334390005787 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 334390005788 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 334390005789 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 334390005790 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 334390005791 dimerization interface [polypeptide binding]; other site 334390005792 putative DNA binding site [nucleotide binding]; other site 334390005793 putative Zn2+ binding site [ion binding]; other site 334390005794 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 334390005795 Transposase; Region: DDE_Tnp_ISL3; pfam01610 334390005796 Arginine repressor [Transcription]; Region: ArgR; COG1438 334390005797 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 334390005798 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 334390005799 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334390005800 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334390005801 Walker A/P-loop; other site 334390005802 ATP binding site [chemical binding]; other site 334390005803 Q-loop/lid; other site 334390005804 ABC transporter signature motif; other site 334390005805 Walker B; other site 334390005806 D-loop; other site 334390005807 H-loop/switch region; other site 334390005808 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 334390005809 FtsX-like permease family; Region: FtsX; pfam02687 334390005810 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334390005811 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334390005812 L-threonine dehydrogenase; Region: threonine_DH_like; cd08234 334390005813 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 334390005814 putative NAD(P) binding site [chemical binding]; other site 334390005815 catalytic Zn binding site [ion binding]; other site 334390005816 manganese transport protein MntH; Reviewed; Region: PRK00701 334390005817 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 334390005818 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 334390005819 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 334390005820 active site 334390005821 dimer interface [polypeptide binding]; other site 334390005822 motif 1; other site 334390005823 motif 2; other site 334390005824 motif 3; other site 334390005825 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 334390005826 anticodon binding site; other site 334390005827 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; pfam13930 334390005828 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 334390005829 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 334390005830 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 334390005831 Catalytic site [active] 334390005832 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 334390005833 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 334390005834 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 334390005835 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334390005836 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334390005837 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 334390005838 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 334390005839 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334390005840 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334390005841 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 334390005842 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 334390005843 active site 334390005844 dimer interface [polypeptide binding]; other site 334390005845 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 334390005846 Ligand Binding Site [chemical binding]; other site 334390005847 Molecular Tunnel; other site 334390005848 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 334390005849 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 334390005850 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 334390005851 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 334390005852 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 334390005853 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 334390005854 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 334390005855 trmE is a tRNA modification GTPase; Region: trmE; cd04164 334390005856 G1 box; other site 334390005857 GTP/Mg2+ binding site [chemical binding]; other site 334390005858 Switch I region; other site 334390005859 G2 box; other site 334390005860 Switch II region; other site 334390005861 G3 box; other site 334390005862 G4 box; other site 334390005863 G5 box; other site 334390005864 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 334390005865 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 334390005866 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 334390005867 G-X-X-G motif; other site 334390005868 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 334390005869 RxxxH motif; other site 334390005870 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 334390005871 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 334390005872 ribonuclease P; Reviewed; Region: rnpA; PRK00499 334390005873 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399