-- dump date 20111121_012708 -- class Genbank::misc_feature -- table misc_feature_note -- id note 334390000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 334390000002 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 334390000003 Walker A motif; other site 334390000004 ATP binding site [chemical binding]; other site 334390000005 Walker B motif; other site 334390000006 arginine finger; other site 334390000007 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 334390000008 DnaA box-binding interface [nucleotide binding]; other site 334390000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 334390000010 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the...; Region: beta_clamp; cd00140 334390000011 putative DNA binding surface [nucleotide binding]; other site 334390000012 dimer interface [polypeptide binding]; other site 334390000013 beta-clamp/clamp loader binding surface; other site 334390000014 beta-clamp/translesion DNA polymerase binding surface; other site 334390000015 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 334390000016 recombination protein F; Reviewed; Region: recF; PRK00064 334390000017 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 334390000018 Walker A/P-loop; other site 334390000019 ATP binding site [chemical binding]; other site 334390000020 Q-loop/lid; other site 334390000021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 334390000022 ABC transporter signature motif; other site 334390000023 Walker B; other site 334390000024 D-loop; other site 334390000025 H-loop/switch region; other site 334390000026 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 334390000027 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 334390000028 ATP binding site [chemical binding]; other site 334390000029 Mg2+ binding site [ion binding]; other site 334390000030 G-X-G motif; other site 334390000031 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 334390000032 anchoring element; other site 334390000033 dimer interface [polypeptide binding]; other site 334390000034 ATP binding site [chemical binding]; other site 334390000035 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of...; Region: TOPRIM_TopoIIA_GyrB; cd03366 334390000036 active site 334390000037 putative metal-binding site [ion binding]; other site 334390000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 334390000039 DNA gyrase subunit A; Validated; Region: PRK05560 334390000040 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cd00187 334390000041 CAP-like domain; other site 334390000042 Active site [active] 334390000043 primary dimer interface [polypeptide binding]; other site 334390000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 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 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 334390000051 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 334390000052 dimer interface [polypeptide binding]; other site 334390000053 ssDNA binding site [nucleotide binding]; other site 334390000054 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334390000055 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 334390000056 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 334390000057 DHH family; Region: DHH; pfam01368 334390000058 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 334390000059 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 334390000060 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 334390000061 replicative DNA helicase; Region: DnaB; TIGR00665 334390000062 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 334390000063 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 334390000064 Walker A motif; other site 334390000065 ATP binding site [chemical binding]; other site 334390000066 Walker B motif; other site 334390000067 DNA binding loops [nucleotide binding] 334390000068 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 334390000069 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334390000070 putative substrate translocation pore; other site 334390000071 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334390000072 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 334390000073 active site 334390000074 phosphorylation site [posttranslational modification] 334390000075 intermolecular recognition site; other site 334390000076 dimerization interface [polypeptide binding]; other site 334390000077 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 334390000078 DNA binding site [nucleotide binding] 334390000079 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 334390000080 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cd06225 334390000081 dimerization interface [polypeptide binding]; other site 334390000082 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 334390000083 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 334390000084 dimer interface [polypeptide binding]; other site 334390000085 phosphorylation site [posttranslational modification] 334390000086 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 334390000087 ATP binding site [chemical binding]; other site 334390000088 Mg2+ binding site [ion binding]; other site 334390000089 G-X-G motif; other site 334390000090 YycH protein; Region: YycH; pfam07435 334390000091 YycH protein; Region: YycI; cl02015 334390000092 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 334390000093 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 334390000094 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 334390000095 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 334390000096 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390000097 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334390000098 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390000099 DNA binding site [nucleotide binding] 334390000100 domain linker motif; other site 334390000101 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 334390000102 GPH family sucrose/H+ symporter; Region: GPH_sucrose; TIGR01301 334390000103 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334390000104 maltose phosphorylase; Provisional; Region: PRK13807 334390000105 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 334390000106 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 334390000107 beta-phosphoglucomutase; Region: bPGM; TIGR01990 334390000108 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 334390000109 motif II; other site 334390000110 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 334390000111 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 334390000112 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-...; Region: Ntn_PVA; cd00542 334390000113 active site 334390000114 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 334390000115 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 334390000116 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 334390000117 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390000118 aspartate aminotransferase; Provisional; Region: PRK08361 334390000119 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 334390000120 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390000121 homodimer interface [polypeptide binding]; other site 334390000122 catalytic residue [active] 334390000123 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 334390000124 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 334390000125 Walker A motif; other site 334390000126 ATP binding site [chemical binding]; other site 334390000127 Walker B motif; other site 334390000128 arginine finger; other site 334390000129 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 334390000130 Walker A motif; other site 334390000131 ATP binding site [chemical binding]; other site 334390000132 Walker B motif; other site 334390000133 arginine finger; other site 334390000134 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 334390000135 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 334390000136 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 334390000137 putative active site [active] 334390000138 catalytic site [active] 334390000139 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 334390000140 putative active site [active] 334390000141 catalytic site [active] 334390000142 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 334390000143 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 334390000144 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 334390000145 helicase-exonuclease AddAB, AddA subunit; Region: addA_Gpos; TIGR02785 334390000146 UvrD/REP helicase; Region: UvrD-helicase; cl14126 334390000147 UvrD/REP helicase; Region: UvrD-helicase; cl14126 334390000148 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and...; Region: Aldo_ket_red; cd06660 334390000149 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 334390000150 active site 334390000151 catalytic tetrad [active] 334390000152 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 334390000153 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 334390000154 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 334390000155 putative active site [active] 334390000156 catalytic site [active] 334390000157 putative metal binding site [ion binding]; other site 334390000158 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 334390000159 putative ArsC-like catalytic residues; other site 334390000160 putative TRX-like catalytic residues [active] 334390000161 ABC-2 type transporter; Region: ABC2_membrane; cl11417 334390000162 PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 334390000163 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 334390000164 Walker A/P-loop; other site 334390000165 ATP binding site [chemical binding]; other site 334390000166 Q-loop/lid; other site 334390000167 ABC transporter signature motif; other site 334390000168 Walker B; other site 334390000169 D-loop; other site 334390000170 H-loop/switch region; other site 334390000171 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334390000172 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334390000173 adenylosuccinate synthetase; Provisional; Region: PRK01117 334390000174 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the r-...; Region: AdSS; cd03108 334390000175 GDP-binding site [chemical binding]; other site 334390000176 ACT binding site; other site 334390000177 IMP binding site; other site 334390000178 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 334390000179 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 334390000180 NAD(P) binding site [chemical binding]; other site 334390000181 catalytic residues [active] 334390000182 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 334390000183 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 334390000184 active site 334390000185 dimer interface [polypeptide binding]; other site 334390000186 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 334390000187 Transposase IS200 like; Region: Y1_Tnp; cl00848 334390000188 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 334390000189 Transposase; Region: DDE_Tnp_ISL3; pfam01610 334390000190 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 334390000191 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 334390000192 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 334390000193 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 334390000194 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 334390000195 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 334390000196 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein; Region: ABC_MetN_methionine_transporter; cd03258 334390000197 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 334390000198 Walker A/P-loop; other site 334390000199 ATP binding site [chemical binding]; other site 334390000200 Q-loop/lid; other site 334390000201 ABC transporter signature motif; other site 334390000202 Walker B; other site 334390000203 D-loop; other site 334390000204 H-loop/switch region; other site 334390000205 NIL domain; Region: NIL; pfam09383 334390000206 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 334390000207 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 334390000208 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 334390000209 metal binding site [ion binding]; metal-binding site 334390000210 dimer interface [polypeptide binding]; other site 334390000211 TRAM domain; Region: TRAM; cl01282 334390000212 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 334390000213 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 334390000214 Transposase IS200 like; Region: Y1_Tnp; cl00848 334390000215 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334390000216 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334390000217 Probable transposase; Region: OrfB_IS605; pfam01385 334390000218 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 334390000219 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 334390000220 DltD N-terminal region; Region: DltD_N; pfam04915 334390000221 DltD central region; Region: DltD_M; pfam04918 334390000222 DltD C-terminal region; Region: DltD_C; pfam04914 334390000223 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087; cl07963 334390000224 MBOAT family; Region: MBOAT; cl00738 334390000225 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 334390000226 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 334390000227 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 334390000228 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 334390000229 active site 334390000230 metal binding site [ion binding]; metal-binding site 334390000231 DNA binding site [nucleotide binding] 334390000232 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 334390000233 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 334390000234 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 334390000235 Walker A/P-loop; other site 334390000236 ATP binding site [chemical binding]; other site 334390000237 Q-loop/lid; other site 334390000238 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 334390000239 ABC transporter signature motif; other site 334390000240 Walker B; other site 334390000241 D-loop; other site 334390000242 H-loop/switch region; other site 334390000243 seryl-tRNA synthetase; Provisional; Region: PRK05431 334390000244 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 334390000245 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 334390000246 dimer interface [polypeptide binding]; other site 334390000247 active site 334390000248 motif 1; other site 334390000249 motif 2; other site 334390000250 motif 3; other site 334390000251 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 334390000252 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 334390000253 active site 334390000254 HIGH motif; other site 334390000255 dimer interface [polypeptide binding]; other site 334390000256 KMSKS motif; other site 334390000257 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 334390000258 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 334390000259 active site 334390000260 HIGH motif; other site 334390000261 dimer interface [polypeptide binding]; other site 334390000262 KMSKS motif; other site 334390000263 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 334390000264 RNA binding surface [nucleotide binding]; other site 334390000265 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 334390000266 substrate binding pocket [chemical binding]; other site 334390000267 membrane-bound complex binding site; other site 334390000268 hinge residues; other site 334390000269 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 334390000270 dimer interface [polypeptide binding]; other site 334390000271 conserved gate region; other site 334390000272 putative PBP binding loops; other site 334390000273 ABC-ATPase subunit interface; other site 334390000274 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 334390000275 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 334390000276 Walker A/P-loop; other site 334390000277 ATP binding site [chemical binding]; other site 334390000278 Q-loop/lid; other site 334390000279 ABC transporter signature motif; other site 334390000280 Walker B; other site 334390000281 D-loop; other site 334390000282 H-loop/switch region; other site 334390000283 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 334390000284 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334390000285 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334390000286 Probable transposase; Region: OrfB_IS605; pfam01385 334390000287 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 334390000288 Transposase IS200 like; Region: Y1_Tnp; cl00848 334390000289 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 334390000290 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 334390000291 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 334390000292 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 334390000293 ParB-like partition proteins; Region: parB_part; TIGR00180 334390000294 ParB-like nuclease domain; Region: ParBc; cl02129 334390000295 ParB-like partition proteins; Region: parB_part; TIGR00180 334390000296 ParB-like nuclease domain; Region: ParBc; cl02129 334390000297 KorB domain; Region: KorB; pfam08535 334390000298 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 334390000299 GTP-binding protein YchF; Reviewed; Region: PRK09601 334390000300 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 334390000301 G1 box; other site 334390000302 GTP/Mg2+ binding site [chemical binding]; other site 334390000303 Switch I region; other site 334390000304 G2 box; other site 334390000305 Switch II region; other site 334390000306 G3 box; other site 334390000307 G4 box; other site 334390000308 G5 box; other site 334390000309 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 334390000310 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 334390000311 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK06843 334390000312 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the...; Region: IMPDH; cd00381 334390000313 active site 334390000314 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390000315 Integrase core domain; Region: rve; cl01316 334390000316 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390000317 MULE transposase domain; Region: MULE; pfam10551 334390000318 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 334390000319 Chain length determinant protein; Region: Wzz; cl01623 334390000320 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 334390000321 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 334390000322 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 334390000323 PHP domain; Region: PHP; pfam02811 334390000324 Bacterial sugar transferase; Region: Bac_transf; cl00939 334390000325 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 334390000326 active site 334390000327 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 334390000328 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 334390000329 active site 334390000330 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 334390000331 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 334390000332 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 334390000333 active site 334390000334 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 334390000335 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 334390000336 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 334390000337 substrate binding site [chemical binding]; other site 334390000338 tetramer interface [polypeptide binding]; other site 334390000339 Cupin domain; Region: Cupin_2; cl09118 334390000340 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 334390000341 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 334390000342 NAD binding site [chemical binding]; other site 334390000343 substrate binding site [chemical binding]; other site 334390000344 homodimer interface [polypeptide binding]; other site 334390000345 active site 334390000346 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 334390000347 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 334390000348 NADP binding site [chemical binding]; other site 334390000349 active site 334390000350 putative substrate binding site [chemical binding]; other site 334390000351 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390000352 MULE transposase domain; Region: MULE; pfam10551 334390000353 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 334390000354 Walker A/P-loop; other site 334390000355 ATP binding site [chemical binding]; other site 334390000356 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 334390000357 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 334390000358 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 334390000359 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 334390000360 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334390000361 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 334390000362 active site 334390000363 phosphorylation site [posttranslational modification] 334390000364 intermolecular recognition site; other site 334390000365 dimerization interface [polypeptide binding]; other site 334390000366 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 334390000367 DNA binding site [nucleotide binding] 334390000368 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 334390000369 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 334390000370 dimer interface [polypeptide binding]; other site 334390000371 phosphorylation site [posttranslational modification] 334390000372 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 334390000373 ATP binding site [chemical binding]; other site 334390000374 Mg2+ binding site [ion binding]; other site 334390000375 G-X-G motif; other site 334390000376 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 334390000377 Beta-lactamase; Region: Beta-lactamase; cl01009 334390000378 AzlC protein; Region: AzlC; cl00570 334390000379 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 334390000380 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 334390000381 PemK-like protein; Region: PemK; cl00995 334390000382 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 334390000383 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 334390000384 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 334390000385 S-adenosylmethionine binding site [chemical binding]; other site 334390000386 Domain of unknown function DUF20; Region: UPF0118; cl00465 334390000387 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 334390000388 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 334390000389 Potassium binding sites [ion binding]; other site 334390000390 Cesium cation binding sites [ion binding]; other site 334390000391 AIR carboxylase; Region: AIRC; cl00310 334390000392 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 334390000393 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 334390000394 adenylosuccinate lyase; Provisional; Region: PRK07492 334390000395 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 334390000396 tetramer interface [polypeptide binding]; other site 334390000397 active site 334390000398 Uncharacterised protein family UPF0547; Region: UPF0547; pfam10571 334390000399 Double zinc ribbon; Region: DZR; pfam12773 334390000400 Uncharacterised protein family UPF0547; Region: UPF0547; pfam10571 334390000401 Predicted membrane protein [Function unknown]; Region: COG4640 334390000402 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 334390000403 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 334390000404 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 334390000405 ATP binding site [chemical binding]; other site 334390000406 active site 334390000407 substrate binding site [chemical binding]; other site 334390000408 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 334390000409 Glutamine amidotransferase [Amino acid transport and metabolism]; Region: HisH; COG0118 334390000410 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 334390000411 putative active site [active] 334390000412 catalytic triad [active] 334390000413 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 334390000414 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 334390000415 dimerization interface [polypeptide binding]; other site 334390000416 ATP binding site [chemical binding]; other site 334390000417 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 334390000418 dimerization interface [polypeptide binding]; other site 334390000419 ATP binding site [chemical binding]; other site 334390000420 amidophosphoribosyltransferase; Provisional; Region: PRK07272 334390000421 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 334390000422 active site 334390000423 tetramer interface [polypeptide binding]; other site 334390000424 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 334390000425 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 334390000426 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine...; Region: PurM; cd02196 334390000427 dimerization interface [polypeptide binding]; other site 334390000428 putative ATP binding site [chemical binding]; other site 334390000429 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 334390000430 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 334390000431 active site 334390000432 substrate binding site [chemical binding]; other site 334390000433 cosubstrate binding site; other site 334390000434 catalytic site [active] 334390000435 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 334390000436 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 334390000437 purine monophosphate binding site [chemical binding]; other site 334390000438 dimer interface [polypeptide binding]; other site 334390000439 putative catalytic residues [active] 334390000440 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 334390000441 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 334390000442 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 334390000443 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 334390000444 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 334390000445 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 334390000446 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334390000447 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334390000448 Probable transposase; Region: OrfB_IS605; pfam01385 334390000449 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 334390000450 Transposase IS200 like; Region: Y1_Tnp; cl00848 334390000451 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 334390000452 catalytic core [active] 334390000453 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 334390000454 aspartate aminotransferase; Provisional; Region: PRK08361 334390000455 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 334390000456 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390000457 homodimer interface [polypeptide binding]; other site 334390000458 catalytic residue [active] 334390000459 Plastocyanin domain containing protein [General function prediction only]; Region: COG4633 334390000460 Plastocyanin domain containing protein [General function prediction only]; Region: COG4633 334390000461 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 334390000462 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 334390000463 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 334390000464 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl01450 334390000465 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...; Region: Nitroreductase; cd02136 334390000466 putative FMN binding site [chemical binding]; other site 334390000467 haloalkane dehalogenase; Provisional; Region: PRK03592 334390000468 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 334390000469 Cadmium resistance transporter; Region: Cad; cl04177 334390000470 EamA-like transporter family; Region: EamA; cl01037 334390000471 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 334390000472 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 334390000473 heme-binding site [chemical binding]; other site 334390000474 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 334390000475 heme-binding site [chemical binding]; other site 334390000476 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 334390000477 heme-binding site [chemical binding]; other site 334390000478 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface...; Region: TroA-like; cl00262 334390000479 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 334390000480 intersubunit interface [polypeptide binding]; other site 334390000481 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 334390000482 ABC-ATPase subunit interface; other site 334390000483 dimer interface [polypeptide binding]; other site 334390000484 putative PBP binding regions; other site 334390000485 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 334390000486 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 334390000487 Walker A/P-loop; other site 334390000488 ATP binding site [chemical binding]; other site 334390000489 Q-loop/lid; other site 334390000490 ABC transporter signature motif; other site 334390000491 Walker B; other site 334390000492 D-loop; other site 334390000493 H-loop/switch region; other site 334390000494 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 334390000495 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 334390000496 putative substrate translocation pore; other site 334390000497 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 334390000498 active site 334390000499 DNA binding site [nucleotide binding] 334390000500 putative phosphate binding site [ion binding]; other site 334390000501 putative catalytic site [active] 334390000502 metal binding site A [ion binding]; metal-binding site 334390000503 AP binding site [nucleotide binding]; other site 334390000504 metal binding site B [ion binding]; metal-binding site 334390000505 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 334390000506 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390000507 NAD+ binding site [chemical binding]; other site 334390000508 allantoate amidohydrolase; Region: AllC; TIGR03176 334390000509 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 334390000510 active site 334390000511 metal binding site [ion binding]; metal-binding site 334390000512 dimer interface [polypeptide binding]; other site 334390000513 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390000514 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cl01055 334390000515 Integrase core domain; Region: rve; cl01316 334390000516 putative allantoin catabolism protein; Region: ura-cupin; TIGR03214 334390000517 Cupin domain; Region: Cupin_2; cl09118 334390000518 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 334390000519 membrane protein FdrA; Validated; Region: PRK06091 334390000520 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 334390000521 active site 334390000522 tetramer interface [polypeptide binding]; other site 334390000523 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...; Region: Nitroreductase; cd02136 334390000524 putative FMN binding site [chemical binding]; other site 334390000525 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 334390000526 active site 334390000527 catalytic triad [active] 334390000528 oxyanion hole [active] 334390000529 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 334390000530 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 334390000531 catalytic Zn binding site [ion binding]; other site 334390000532 NAD(P) binding site [chemical binding]; other site 334390000533 structural Zn binding site [ion binding]; other site 334390000534 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 334390000535 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 334390000536 Zn binding site [ion binding]; other site 334390000537 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and...; Region: Aldo_ket_red; cd06660 334390000538 catalytic tetrad [active] 334390000539 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334390000540 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390000541 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 334390000542 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH...; Region: NfsA_FRP; cd02146 334390000543 dimer interface [polypeptide binding]; other site 334390000544 FMN binding site [chemical binding]; other site 334390000545 NADPH bind site [chemical binding]; other site 334390000546 Transposase IS200 like; Region: Y1_Tnp; cl00848 334390000547 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334390000548 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334390000549 Probable transposase; Region: OrfB_IS605; pfam01385 334390000550 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 334390000551 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 334390000552 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 334390000553 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 334390000554 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 334390000555 UvrD/REP helicase; Region: UvrD-helicase; cl14126 334390000556 UvrD/REP helicase; Region: UvrD-helicase; cl14126 334390000557 exopolyphosphatase; Region: exo_poly_only; TIGR03706 334390000558 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 334390000559 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 334390000560 homodimer interface [polypeptide binding]; other site 334390000561 NAD binding site [chemical binding]; other site 334390000562 catalytic residues [active] 334390000563 substrate binding pocket [chemical binding]; other site 334390000564 flexible flap; other site 334390000565 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 334390000566 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 334390000567 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334390000568 putative substrate translocation pore; other site 334390000569 Protein of unknown function DUF72; Region: DUF72; cl00777 334390000570 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 334390000571 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 334390000572 HIGH motif; other site 334390000573 active site 334390000574 KMSKS motif; other site 334390000575 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 334390000576 tRNA binding surface [nucleotide binding]; other site 334390000577 anticodon binding site; other site 334390000578 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 334390000579 dimer interface [polypeptide binding]; other site 334390000580 putative tRNA-binding site [nucleotide binding]; other site 334390000581 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 334390000582 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 334390000583 active site 334390000584 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 334390000585 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...; Region: TOPRIM_RNase_M5_like; cd01027 334390000586 putative active site [active] 334390000587 putative metal binding site [ion binding]; other site 334390000588 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 334390000589 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 334390000590 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 334390000591 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 334390000592 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 334390000593 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 334390000594 metal binding site [ion binding]; metal-binding site 334390000595 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 334390000596 Walker A/P-loop; other site 334390000597 ATP binding site [chemical binding]; other site 334390000598 Q-loop/lid; other site 334390000599 ABC transporter signature motif; other site 334390000600 Walker B; other site 334390000601 D-loop; other site 334390000602 H-loop/switch region; other site 334390000603 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cl00462 334390000604 pur operon repressor; Provisional; Region: PRK09213 334390000605 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 334390000606 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 334390000607 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 334390000608 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 334390000609 Substrate binding site [chemical binding]; other site 334390000610 Mg++ binding site [ion binding]; other site 334390000611 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 334390000612 active site 334390000613 substrate binding site [chemical binding]; other site 334390000614 CoA binding site [chemical binding]; other site 334390000615 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 334390000616 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 334390000617 sugar phosphate phosphatase; Provisional; Region: PRK10513 334390000618 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 334390000619 active site 334390000620 motif I; other site 334390000621 motif II; other site 334390000622 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 334390000623 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334390000624 Zn2+ binding site [ion binding]; other site 334390000625 Mg2+ binding site [ion binding]; other site 334390000626 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 334390000627 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 334390000628 CTP synthetase; Validated; Region: pyrG; PRK05380 334390000629 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer...; Region: CTGs; cd03113 334390000630 Catalytic site [active] 334390000631 Active site [active] 334390000632 UTP binding site [chemical binding]; other site 334390000633 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 334390000634 active site 334390000635 putative oxyanion hole; other site 334390000636 catalytic triad [active] 334390000637 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 334390000638 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 334390000639 hinge; other site 334390000640 active site 334390000641 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 334390000642 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 334390000643 active site 334390000644 catalytic site [active] 334390000645 LemA family; Region: LemA; cl00742 334390000646 Peptidase family M48; Region: Peptidase_M48; cl12018 334390000647 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 334390000648 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 334390000649 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334390000650 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334390000651 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 334390000652 DEAD-like helicases superfamily; Region: DEXDc; smart00487 334390000653 ATP binding site [chemical binding]; other site 334390000654 Mg++ binding site [ion binding]; other site 334390000655 motif III; other site 334390000656 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 334390000657 nucleotide binding region [chemical binding]; other site 334390000658 ATP-binding site [chemical binding]; other site 334390000659 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 334390000660 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 334390000661 alanine racemase; Reviewed; Region: alr; PRK00053 334390000662 active site 334390000663 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 334390000664 dimer interface [polypeptide binding]; other site 334390000665 substrate binding site [chemical binding]; other site 334390000666 catalytic residues [active] 334390000667 PemK-like protein; Region: PemK; cl00995 334390000668 FOG: CBS domain [General function prediction only]; Region: COG0517 334390000669 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair; cd02205 334390000670 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 334390000671 putative active site [active] 334390000672 catalytic residue [active] 334390000673 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 334390000674 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 334390000675 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 334390000676 ATP binding site [chemical binding]; other site 334390000677 putative Mg++ binding site [ion binding]; other site 334390000678 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 334390000679 nucleotide binding region [chemical binding]; other site 334390000680 ATP-binding site [chemical binding]; other site 334390000681 TRCF domain; Region: TRCF; pfam03461 334390000682 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 334390000683 Septum formation initiator; Region: DivIC; cl11433 334390000684 hypothetical protein; Provisional; Region: PRK08582 334390000685 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 of...; Region: S1_RPS1_repeat_hs4; cd05692 334390000686 RNA binding site [nucleotide binding]; other site 334390000687 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 334390000688 Ligand Binding Site [chemical binding]; other site 334390000689 B3/4 domain; Region: B3_4; cl11458 334390000690 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 334390000691 FtsH Extracellular; Region: FtsH_ext; pfam06480 334390000692 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 334390000693 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 334390000694 Walker A motif; other site 334390000695 ATP binding site [chemical binding]; other site 334390000696 Walker B motif; other site 334390000697 arginine finger; other site 334390000698 Peptidase family M41; Region: Peptidase_M41; pfam01434 334390000699 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 334390000700 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 334390000701 dimerization interface [polypeptide binding]; other site 334390000702 domain crossover interface; other site 334390000703 redox-dependent activation switch; other site 334390000704 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 334390000705 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and...; Region: DUS_like_FMN; cd02801 334390000706 FMN binding site [chemical binding]; other site 334390000707 active site 334390000708 catalytic residues [active] 334390000709 substrate binding site [chemical binding]; other site 334390000710 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 334390000711 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-...; Region: LysRS_N; cd04322 334390000712 dimer interface [polypeptide binding]; other site 334390000713 putative anticodon binding site; other site 334390000714 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 334390000715 motif 1; other site 334390000716 active site 334390000717 motif 2; other site 334390000718 motif 3; other site 334390000719 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 334390000720 polymerase nucleotide-binding site; other site 334390000721 DNA-binding residues [nucleotide binding]; DNA binding site 334390000722 nucleotide binding site [chemical binding]; other site 334390000723 primase nucleotide-binding site [nucleotide binding]; other site 334390000724 Primase C terminal 1 (PriCT-1); Region: PriCT_1; pfam08708 334390000725 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 334390000726 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 334390000727 non-specific DNA binding site [nucleotide binding]; other site 334390000728 salt bridge; other site 334390000729 sequence-specific DNA binding site [nucleotide binding]; other site 334390000730 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 334390000731 Phage integrase family; Region: Phage_integrase; pfam00589 334390000732 Int/Topo IB signature motif; other site 334390000733 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 334390000734 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334390000735 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 334390000736 NAD binding site [chemical binding]; other site 334390000737 dimer interface [polypeptide binding]; other site 334390000738 substrate binding site [chemical binding]; other site 334390000739 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 334390000740 metabolite-proton symporter; Region: 2A0106; TIGR00883 334390000741 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 334390000742 putative substrate translocation pore; other site 334390000743 Transposase IS200 like; Region: Y1_Tnp; cl00848 334390000744 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334390000745 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334390000746 Probable transposase; Region: OrfB_IS605; pfam01385 334390000747 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 334390000748 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 334390000749 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 334390000750 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 334390000751 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 334390000752 aspartate racemase; Region: asp_race; TIGR00035 334390000753 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 334390000754 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334390000755 DNA-binding site [nucleotide binding]; DNA binding site 334390000756 UTRA domain; Region: UTRA; cl06649 334390000757 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 334390000758 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...; Region: NAPRTase_A; cd01570 334390000759 active site 334390000760 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 334390000761 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to...; Region: NAD_synthase; cd00553 334390000762 homodimer interface [polypeptide binding]; other site 334390000763 NAD binding pocket [chemical binding]; other site 334390000764 ATP binding pocket [chemical binding]; other site 334390000765 Mg binding site [ion binding]; other site 334390000766 active-site loop [active] 334390000767 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 334390000768 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 334390000769 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 334390000770 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin...; Region: S1_Tex; cd05685 334390000771 RNA binding site [nucleotide binding]; other site 334390000772 hypothetical protein; Provisional; Region: PRK04351 334390000773 SprT homologues; Region: SprT; cl01182 334390000774 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 334390000775 domain; Region: Glyco_hydro_2; pfam00703 334390000776 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl14895 334390000777 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 334390000778 Membrane transport protein; Region: Mem_trans; cl09117 334390000779 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 334390000780 catalytic core [active] 334390000781 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 334390000782 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 334390000783 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 334390000784 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...; Region: Peptidase_C1B; cd00585 334390000785 trimer interface [polypeptide binding]; other site 334390000786 active site 334390000787 G bulge; other site 334390000788 maltose O-acetyltransferase; Provisional; Region: PRK10092 334390000789 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 334390000790 active site 334390000791 substrate binding site [chemical binding]; other site 334390000792 trimer interface [polypeptide binding]; other site 334390000793 CoA binding site [chemical binding]; other site 334390000794 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 334390000795 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334390000796 active site 334390000797 dimer interface [polypeptide binding]; other site 334390000798 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 334390000799 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 334390000800 trimer interface [polypeptide binding]; other site 334390000801 active site 334390000802 DNA repair protein RadA; Provisional; Region: PRK11823 334390000803 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 334390000804 Walker A motif/ATP binding site; other site 334390000805 ATP binding site [chemical binding]; other site 334390000806 Walker B motif; other site 334390000807 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 334390000808 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 334390000809 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 334390000810 putative active site [active] 334390000811 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 334390000812 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 334390000813 active site 334390000814 HIGH motif; other site 334390000815 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 334390000816 active site 334390000817 KMSKS motif; other site 334390000818 Protein of unknown function (DUF436); Region: DUF436; cl01860 334390000819 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 334390000820 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 334390000821 active site 334390000822 HIGH motif; other site 334390000823 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 334390000824 KMSKS motif; other site 334390000825 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 334390000826 tRNA binding surface [nucleotide binding]; other site 334390000827 anticodon binding site; other site 334390000828 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in post-...; Region: RIBOc; cd00593 334390000829 active site 334390000830 metal binding site [ion binding]; metal-binding site 334390000831 dimerization interface [polypeptide binding]; other site 334390000832 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 334390000833 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 334390000834 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 334390000835 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 334390000836 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334390000837 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cl01055 334390000838 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 334390000839 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 334390000840 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 334390000841 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 334390000842 putative homodimer interface [polypeptide binding]; other site 334390000843 KOW (Kyprides, Ouzounis, Woese) motif; Region: KOW; smart00739 334390000844 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 334390000845 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 334390000846 23S rRNA interface [nucleotide binding]; other site 334390000847 L7/L12 interface [polypeptide binding]; other site 334390000848 putative thiostrepton binding site; other site 334390000849 L25 interface [polypeptide binding]; other site 334390000850 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that...; Region: Ribosomal_L1; cd00403 334390000851 mRNA/rRNA interface [nucleotide binding]; other site 334390000852 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 334390000853 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11...; Region: Ribosomal_L10; cd05797 334390000854 23S rRNA interface [nucleotide binding]; other site 334390000855 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 334390000856 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 334390000857 peripheral dimer interface [polypeptide binding]; other site 334390000858 core dimer interface [polypeptide binding]; other site 334390000859 L10 interface [polypeptide binding]; other site 334390000860 L11 interface [polypeptide binding]; other site 334390000861 putative EF-Tu interaction site [polypeptide binding]; other site 334390000862 putative EF-G interaction site [polypeptide binding]; other site 334390000863 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 334390000864 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 334390000865 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 334390000866 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 334390000867 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 334390000868 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 334390000869 Walker A/P-loop; other site 334390000870 ATP binding site [chemical binding]; other site 334390000871 Q-loop/lid; other site 334390000872 ABC transporter signature motif; other site 334390000873 Walker B; other site 334390000874 D-loop; other site 334390000875 H-loop/switch region; other site 334390000876 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 334390000877 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 334390000878 The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd...; Region: ABCC_cytochrome_bd; cd03247 334390000879 Walker A/P-loop; other site 334390000880 ATP binding site [chemical binding]; other site 334390000881 Q-loop/lid; other site 334390000882 ABC transporter signature motif; other site 334390000883 Walker B; other site 334390000884 D-loop; other site 334390000885 H-loop/switch region; other site 334390000886 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 334390000887 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 334390000888 putative catalytic cysteine [active] 334390000889 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 334390000890 putative active site [active] 334390000891 metal binding site [ion binding]; metal-binding site 334390000892 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 334390000893 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 334390000894 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 334390000895 dimer interface [polypeptide binding]; other site 334390000896 putative radical transfer pathway; other site 334390000897 diiron center [ion binding]; other site 334390000898 tyrosyl radical; other site 334390000899 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 334390000900 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 334390000901 Class I ribonucleotide reductase; Region: RNR_I; cd01679 334390000902 active site 334390000903 dimer interface [polypeptide binding]; other site 334390000904 catalytic residues [active] 334390000905 effector binding site; other site 334390000906 R2 peptide binding site; other site 334390000907 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide...; Region: NrdH; cd02976 334390000908 catalytic residues [active] 334390000909 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 334390000910 nucleoside/Zn binding site; other site 334390000911 dimer interface [polypeptide binding]; other site 334390000912 catalytic motif [active] 334390000913 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 334390000914 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 334390000915 Walker A motif; other site 334390000916 ATP binding site [chemical binding]; other site 334390000917 Walker B motif; other site 334390000918 arginine finger; other site 334390000919 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 334390000920 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 334390000921 recombination protein RecR; Reviewed; Region: recR; PRK00076 334390000922 RecR protein; Region: RecR; pfam02132 334390000923 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 334390000924 putative active site [active] 334390000925 putative metal-binding site [ion binding]; other site 334390000926 tetramer interface [polypeptide binding]; other site 334390000927 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 334390000928 thymidylate kinase; Validated; Region: tmk; PRK00698 334390000929 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting...; Region: TMPK; cd01672 334390000930 TMP-binding site; other site 334390000931 ATP-binding site [chemical binding]; other site 334390000932 Nitrogen regulatory protein P-II; Region: P-II; cl00412 334390000933 DNA polymerase III subunit delta'; Validated; Region: PRK08058 334390000934 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 334390000935 Protein of unknown function (DUF972); Region: DUF972; cl01853 334390000936 Predicted methyltransferases [General function prediction only]; Region: COG0313 334390000937 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 334390000938 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 334390000939 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active...; Region: 4HBT; cd00586 334390000940 active site 334390000941 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active...; Region: 4HBT; cd00586 334390000942 active site 334390000943 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 334390000944 Polyphosphate kinase; Region: PP_kinase; pfam02503 334390000945 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 334390000946 putative domain interface [polypeptide binding]; other site 334390000947 putative active site [active] 334390000948 catalytic site [active] 334390000949 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 334390000950 putative domain interface [polypeptide binding]; other site 334390000951 putative active site [active] 334390000952 catalytic site [active] 334390000953 exopolyphosphatase; Region: exo_poly_only; TIGR03706 334390000954 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 334390000955 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 334390000956 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 334390000957 NAD binding site [chemical binding]; other site 334390000958 homodimer interface [polypeptide binding]; other site 334390000959 active site 334390000960 substrate binding site [chemical binding]; other site 334390000961 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 334390000962 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 334390000963 active site 334390000964 phosphorylation site [posttranslational modification] 334390000965 intermolecular recognition site; other site 334390000966 dimerization interface [polypeptide binding]; other site 334390000967 YcbB domain; Region: YcbB; pfam08664 334390000968 ornithine carbamoyltransferase; Provisional; Region: PRK04284 334390000969 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 334390000970 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 334390000971 carbamate kinase; Reviewed; Region: PRK12686 334390000972 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 334390000973 putative substrate binding site [chemical binding]; other site 334390000974 nucleotide binding site [chemical binding]; other site 334390000975 nucleotide binding site [chemical binding]; other site 334390000976 homodimer interface [polypeptide binding]; other site 334390000977 Amidinotransferase; Region: Amidinotransf; cl12043 334390000978 Arginine deiminase [Amino acid transport and metabolism]; Region: ArcA; COG2235 334390000979 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 334390000980 C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 334390000981 substrate binding site [chemical binding]; other site 334390000982 THF binding site; other site 334390000983 zinc-binding site [ion binding]; other site 334390000984 tyrosine aminotransferase, eukaryotic; Region: tyr_amTase_E; TIGR01264 334390000985 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 334390000986 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390000987 homodimer interface [polypeptide binding]; other site 334390000988 catalytic residue [active] 334390000989 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 334390000990 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 334390000991 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 334390000992 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 334390000993 UGMP family protein; Validated; Region: PRK09604 334390000994 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 334390000995 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 334390000996 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390000997 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 334390000998 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 334390000999 dimer interface [polypeptide binding]; other site 334390001000 active site 334390001001 CoA binding pocket [chemical binding]; other site 334390001002 Phosphopantetheine attachment site; Region: PP-binding; cl09936 334390001003 Acyl transferase domain; Region: Acyl_transf_1; cl08282 334390001004 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 334390001005 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 334390001006 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390001007 NAD(P) binding site [chemical binding]; other site 334390001008 active site 334390001009 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 334390001010 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 334390001011 dimer interface [polypeptide binding]; other site 334390001012 active site 334390001013 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 334390001014 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 334390001015 carboxyltransferase (CT) interaction site; other site 334390001016 biotinylation site [posttranslational modification]; other site 334390001017 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 334390001018 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 334390001019 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 334390001020 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 334390001021 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 334390001022 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 334390001023 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 334390001024 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 334390001025 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 334390001026 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 334390001027 NAD binding site [chemical binding]; other site 334390001028 homotetramer interface [polypeptide binding]; other site 334390001029 homodimer interface [polypeptide binding]; other site 334390001030 substrate binding site [chemical binding]; other site 334390001031 active site 334390001032 BioY family; Region: BioY; cl00560 334390001033 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390001034 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 334390001035 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 334390001036 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 334390001037 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 334390001038 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 334390001039 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 334390001040 Walker A/P-loop; other site 334390001041 ATP binding site [chemical binding]; other site 334390001042 Q-loop/lid; other site 334390001043 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 334390001044 ABC transporter signature motif; other site 334390001045 Walker B; other site 334390001046 D-loop; other site 334390001047 H-loop/switch region; other site 334390001048 ABC transporter; Region: ABC_tran_2; pfam12848 334390001049 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 334390001050 peptide chain release factor 1; Validated; Region: prfA; PRK00591 334390001051 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 334390001052 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 334390001053 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390001054 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts...; Region: cpn10; cd00320 334390001055 oligomerisation interface [polypeptide binding]; other site 334390001056 mobile loop; other site 334390001057 roof hairpin; other site 334390001058 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 334390001059 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 334390001060 ring oligomerisation interface [polypeptide binding]; other site 334390001061 ATP/Mg binding site [chemical binding]; other site 334390001062 stacking interactions; other site 334390001063 hinge regions; other site 334390001064 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 334390001065 Uncharacterized conserved protein [Function unknown]; Region: COG1739 334390001066 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 334390001067 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 334390001068 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 334390001069 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 334390001070 ATP binding site [chemical binding]; other site 334390001071 putative Mg++ binding site [ion binding]; other site 334390001072 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 334390001073 nucleotide binding region [chemical binding]; other site 334390001074 ATP-binding site [chemical binding]; other site 334390001075 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 334390001076 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 334390001077 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site...; Region: RaiA; cd00552 334390001078 30S subunit binding site; other site 334390001079 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12906 334390001080 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 334390001081 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 334390001082 nucleotide binding region [chemical binding]; other site 334390001083 ATP-binding site [chemical binding]; other site 334390001084 peptide chain release factor 2; Validated; Region: prfB; PRK00578 334390001085 RF-1 domain; Region: RF-1; cl02875 334390001086 RF-1 domain; Region: RF-1; cl02875 334390001087 PspC domain; Region: PspC; cl00864 334390001088 Membrane protein of unknown function; Region: DUF360; cl00850 334390001089 HPr kinase/phosphorylase; Provisional; Region: PRK05428 334390001090 DRTGG domain; Region: DRTGG; cl12147 334390001091 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-...; Region: HprK_C; cd01918 334390001092 Hpr binding site; other site 334390001093 active site 334390001094 homohexamer subunit interaction site [polypeptide binding]; other site 334390001095 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 334390001096 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 334390001097 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390001098 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 334390001099 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 334390001100 active site 334390001101 tetramer interface [polypeptide binding]; other site 334390001102 Predicted amidohydrolase [General function prediction only]; Region: COG0388 334390001103 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 334390001104 putative active site [active] 334390001105 catalytic triad [active] 334390001106 putative dimer interface [polypeptide binding]; other site 334390001107 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 334390001108 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 334390001109 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390001110 homodimer interface [polypeptide binding]; other site 334390001111 catalytic residue [active] 334390001112 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390001113 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 334390001114 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 334390001115 Cupin domain; Region: Cupin_2; cl09118 334390001116 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 334390001117 conserved cys residue [active] 334390001118 cysteine synthases; Region: cysKM; TIGR01136 334390001119 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 334390001120 dimer interface [polypeptide binding]; other site 334390001121 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390001122 catalytic residue [active] 334390001123 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 334390001124 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and alpha-...; Region: BCAT_beta_family; cd01557 334390001125 homodimer interface [polypeptide binding]; other site 334390001126 substrate-cofactor binding pocket; other site 334390001127 catalytic residue [active] 334390001128 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 334390001129 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334390001130 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 334390001131 NAD binding site [chemical binding]; other site 334390001132 dimer interface [polypeptide binding]; other site 334390001133 substrate binding site [chemical binding]; other site 334390001134 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 334390001135 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 334390001136 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and deoxyribose-1-...; Region: PGM2; cd05799 334390001137 active site 334390001138 substrate binding site [chemical binding]; other site 334390001139 metal binding site [ion binding]; metal-binding site 334390001140 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 334390001141 excinuclease ABC subunit B; Provisional; Region: PRK05298 334390001142 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 334390001143 ATP binding site [chemical binding]; other site 334390001144 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 334390001145 nucleotide binding region [chemical binding]; other site 334390001146 ATP-binding site [chemical binding]; other site 334390001147 Ultra-violet resistance protein B; Region: UvrB; pfam12344 334390001148 UvrB/uvrC motif; Region: UVR; pfam02151 334390001149 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 334390001150 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 334390001151 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 334390001152 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 334390001153 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 334390001154 active site 334390001155 substrate binding site [chemical binding]; other site 334390001156 catalytic site [active] 334390001157 P-loop ATPase protein family; Region: ATP_bind_2; cl10035 334390001158 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 334390001159 Uncharacterised protein family UPF0052; Region: UPF0052; pfam01933 334390001160 phosphate binding site [ion binding]; other site 334390001161 putative substrate binding pocket [chemical binding]; other site 334390001162 dimer interface [polypeptide binding]; other site 334390001163 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 334390001164 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 334390001165 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 334390001166 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 334390001167 oligomer interface [polypeptide binding]; other site 334390001168 active site residues [active] 334390001169 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390001170 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 334390001171 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 334390001172 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 334390001173 substrate binding site [chemical binding]; other site 334390001174 hinge regions; other site 334390001175 ADP binding site [chemical binding]; other site 334390001176 catalytic site [active] 334390001177 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 334390001178 substrate binding site [chemical binding]; other site 334390001179 dimer interface [polypeptide binding]; other site 334390001180 catalytic triad [active] 334390001181 enolase; Provisional; Region: eno; PRK00077 334390001182 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 334390001183 dimer interface [polypeptide binding]; other site 334390001184 metal binding site [ion binding]; metal-binding site 334390001185 substrate binding pocket [chemical binding]; other site 334390001186 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 334390001187 Amino acid permease; Region: AA_permease; pfam00324 334390001188 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-...; Region: EriC; cd01031 334390001189 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 334390001190 Cl- selectivity filter; other site 334390001191 Cl- binding residues [ion binding]; other site 334390001192 pore gating glutamate residue; other site 334390001193 dimer interface [polypeptide binding]; other site 334390001194 H+/Cl- coupling transport residue; other site 334390001195 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 334390001196 Preprotein translocase SecG subunit; Region: SecG; cl09123 334390001197 ribonuclease R; Region: RNase_R; TIGR02063 334390001198 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain...; Region: S1_like; cl09927 334390001199 RNB domain; Region: RNB; pfam00773 334390001200 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an...; Region: S1_RNase_R; cd04471 334390001201 RNA binding site [nucleotide binding]; other site 334390001202 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 334390001203 SmpB-tmRNA interface; other site 334390001204 Scramblase; Region: Scramblase; cl02043 334390001205 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 334390001206 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 334390001207 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 334390001208 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 334390001209 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 334390001210 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 334390001211 active site 334390001212 catalytic site [active] 334390001213 substrate binding site [chemical binding]; other site 334390001214 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 334390001215 FAD binding domain; Region: FAD_binding_4; pfam01565 334390001216 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 334390001217 Uncharacterized conserved protein [Function unknown]; Region: COG1624 334390001218 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 334390001219 YbbR-like protein; Region: YbbR; pfam07949 334390001220 YbbR-like protein; Region: YbbR; pfam07949 334390001221 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 334390001222 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of UDP-N-...; Region: GlmM; cd05802 334390001223 active site 334390001224 substrate binding site [chemical binding]; other site 334390001225 metal binding site [ion binding]; metal-binding site 334390001226 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 334390001227 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate...; Region: GFAT; cd00714 334390001228 glutaminase active site [active] 334390001229 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 334390001230 dimer interface [polypeptide binding]; other site 334390001231 active site 334390001232 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 334390001233 dimer interface [polypeptide binding]; other site 334390001234 active site 334390001235 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 334390001236 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 334390001237 active site 334390001238 motif I; other site 334390001239 motif II; other site 334390001240 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 334390001241 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 334390001242 putative peptidoglycan binding site; other site 334390001243 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 334390001244 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334390001245 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390001246 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 334390001247 dimerization interface [polypeptide binding]; other site 334390001248 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 334390001249 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 334390001250 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 334390001251 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_man; cd00006 334390001252 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 334390001253 active pocket/dimerization site; other site 334390001254 active site 334390001255 phosphorylation site [posttranslational modification] 334390001256 Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four...; Region: PTS_IIB_man; cd00001 334390001257 active site 334390001258 phosphorylation site [posttranslational modification] 334390001259 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 334390001260 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 334390001261 Domain of unknown function (DUF956); Region: DUF956; cl01917 334390001262 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390001263 MULE transposase domain; Region: MULE; pfam10551 334390001264 putative transposase OrfB; Reviewed; Region: PHA02517 334390001265 Integrase core domain; Region: rve; cl01316 334390001266 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334390001267 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 334390001268 active site 334390001269 phosphorylation site [posttranslational modification] 334390001270 intermolecular recognition site; other site 334390001271 dimerization interface [polypeptide binding]; other site 334390001272 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 334390001273 DNA binding site [nucleotide binding] 334390001274 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 334390001275 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 334390001276 dimer interface [polypeptide binding]; other site 334390001277 phosphorylation site [posttranslational modification] 334390001278 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 334390001279 ATP binding site [chemical binding]; other site 334390001280 Mg2+ binding site [ion binding]; other site 334390001281 G-X-G motif; other site 334390001282 Sugar transport protein; Region: Sugar_transport; pfam06800 334390001283 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 334390001284 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 334390001285 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 334390001286 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 334390001287 putative substrate translocation pore; other site 334390001288 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 334390001289 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 334390001290 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 334390001291 D-xylulose kinase; Region: XylB; TIGR01312 334390001292 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 334390001293 Cupin domain; Region: Cupin_2; cl09118 334390001294 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 334390001295 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 334390001296 inhibitor binding site; inhibition site 334390001297 active site 334390001298 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 334390001299 putative transporter; Provisional; Region: PRK11462 334390001300 putative transposase OrfB; Reviewed; Region: PHA02517 334390001301 Integrase core domain; Region: rve; cl01316 334390001302 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 334390001303 peroxiredoxin; Region: AhpC; TIGR03137 334390001304 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic...; Region: PRX_Typ2cys; cd03015 334390001305 dimer interface [polypeptide binding]; other site 334390001306 decamer (pentamer of dimers) interface [polypeptide binding]; other site 334390001307 catalytic triad [active] 334390001308 peroxidatic and resolving cysteines [active] 334390001309 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 334390001310 putative alkyl hydroperoxide reductase F subunit; Region: AhpF_homolog; TIGR03143 334390001311 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 334390001312 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...; Region: AhpF_NTD_N; cd02974 334390001313 catalytic residue [active] 334390001314 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 334390001315 catalytic residues [active] 334390001316 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 334390001317 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 334390001318 active site 334390001319 dimer interface [polypeptide binding]; other site 334390001320 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 334390001321 dimer interface [polypeptide binding]; other site 334390001322 active site 334390001323 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334390001324 Coenzyme A binding pocket [chemical binding]; other site 334390001325 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 334390001326 active site 334390001327 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and...; Region: Aldo_ket_red; cd06660 334390001328 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 334390001329 active site 334390001330 catalytic tetrad [active] 334390001331 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 334390001332 substrate binding site [chemical binding]; other site 334390001333 dimer interface [polypeptide binding]; other site 334390001334 catalytic triad [active] 334390001335 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 334390001336 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390001337 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334390001338 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 334390001339 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 334390001340 Walker A/P-loop; other site 334390001341 ATP binding site [chemical binding]; other site 334390001342 Q-loop/lid; other site 334390001343 ABC transporter signature motif; other site 334390001344 Walker B; other site 334390001345 D-loop; other site 334390001346 H-loop/switch region; other site 334390001347 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 334390001348 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334390001349 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide...; Region: ABCC_Glucan_exporter_like; cd03254 334390001350 Walker A/P-loop; other site 334390001351 ATP binding site [chemical binding]; other site 334390001352 Q-loop/lid; other site 334390001353 ABC transporter signature motif; other site 334390001354 Walker B; other site 334390001355 D-loop; other site 334390001356 H-loop/switch region; other site 334390001357 Beta-lactamase; Region: Beta-lactamase; cl01009 334390001358 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 334390001359 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 334390001360 putative active site [active] 334390001361 catalytic site [active] 334390001362 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 334390001363 putative active site [active] 334390001364 catalytic site [active] 334390001365 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 334390001366 catalytic triad [active] 334390001367 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 334390001368 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334390001369 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 334390001370 Thymidine kinase; Region: TK; cl00631 334390001371 peptide chain release factor 1; Validated; Region: prfA; PRK00591 334390001372 RF-1 domain; Region: RF-1; cl02875 334390001373 RF-1 domain; Region: RF-1; cl02875 334390001374 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 334390001375 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 334390001376 S-adenosylmethionine binding site [chemical binding]; other site 334390001377 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 334390001378 SUA5 domain; Region: SUA5; pfam03481 334390001379 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of...; Region: SHMT; cd00378 334390001380 dimer interface [polypeptide binding]; other site 334390001381 glycine-pyridoxal phosphate binding site [chemical binding]; other site 334390001382 active site 334390001383 folate binding site [chemical binding]; other site 334390001384 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 334390001385 YibE/F-like protein; Region: YibE_F; cl02259 334390001386 YibE/F-like protein; Region: YibE_F; cl02259 334390001387 Sulfate transporter family; Region: Sulfate_transp; cl00967 334390001388 Permease family; Region: Xan_ur_permease; pfam00860 334390001389 ATP synthase A chain; Region: ATP-synt_A; cl00413 334390001390 ATP synthase subunit C; Region: ATP-synt_C; cl00466 334390001391 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 334390001392 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 334390001393 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 334390001394 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 334390001395 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 334390001396 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 334390001397 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 334390001398 beta subunit interaction interface [polypeptide binding]; other site 334390001399 Walker A motif; other site 334390001400 ATP binding site [chemical binding]; other site 334390001401 Walker B motif; other site 334390001402 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 334390001403 ATP synthase; Region: ATP-synt; cl00365 334390001404 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 334390001405 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 334390001406 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 334390001407 alpha subunit interaction interface [polypeptide binding]; other site 334390001408 Walker A motif; other site 334390001409 ATP binding site [chemical binding]; other site 334390001410 Walker B motif; other site 334390001411 inhibitor binding site; inhibition site 334390001412 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 334390001413 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 334390001414 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 334390001415 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 334390001416 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 with a...; Region: EPT_RTPC-like; cl00288 334390001417 rod shape-determining protein MreB; Provisional; Region: PRK13930 334390001418 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 334390001419 ATP binding site [chemical binding]; other site 334390001420 profilin binding site; other site 334390001421 Domain of unknown function DUF37; Region: DUF37; cl00506 334390001422 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 334390001423 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 334390001424 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2...; Region: Biotinyl_lipoyl_domains; cl11404 334390001425 lipoyl-biotinyl attachment site [posttranslational modification]; other site 334390001426 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 334390001427 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 334390001428 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 334390001429 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 334390001430 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 334390001431 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 334390001432 binding surface 334390001433 TPR motif; other site 334390001434 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 334390001435 Ligand Binding Site [chemical binding]; other site 334390001436 recombination factor protein RarA; Reviewed; Region: PRK13342 334390001437 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 334390001438 Walker A motif; other site 334390001439 ATP binding site [chemical binding]; other site 334390001440 Walker B motif; other site 334390001441 arginine finger; other site 334390001442 MgsA AAA+ ATPase C terminal; Region: MgsA_C; cl13440 334390001443 Protein of unknown function (DUF1694); Region: DUF1694; cl02318 334390001444 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 334390001445 active site 334390001446 metal binding site [ion binding]; metal-binding site 334390001447 Uncharacterized conserved protein [Function unknown]; Region: COG1284 334390001448 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334390001449 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 334390001450 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 334390001451 Phage integrase family; Region: Phage_integrase; pfam00589 334390001452 Int/Topo IB signature motif; other site 334390001453 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 334390001454 phage nucleotide-binding protein; Region: phage_P_loop; TIGR01618 334390001455 DEAD-like helicases superfamily; Region: DEXDc; smart00487 334390001456 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 334390001457 ATP binding site [chemical binding]; other site 334390001458 putative Mg++ binding site [ion binding]; other site 334390001459 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 334390001460 nucleotide binding region [chemical binding]; other site 334390001461 ATP-binding site [chemical binding]; other site 334390001462 Protein of unknown function (DUF669); Region: DUF669; pfam05037 334390001463 Uncharacterized conserved protein [Function unknown]; Region: COG4983 334390001464 hypothetical protein; Provisional; Region: PRK14709 334390001465 D5 N terminal like; Region: D5_N; pfam08706 334390001466 C-terminal domain; Region: primase_Cterm; TIGR01613 334390001467 VRR-NUC domain; Region: VRR_NUC; pfam08774 334390001468 Phage terminase, small subunit; Region: Terminase_4; cl01525 334390001469 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 334390001470 Phage Terminase; Region: Terminase_1; pfam03354 334390001471 Phage-related protein [Function unknown]; Region: COG4695; cl01923 334390001472 Phage portal protein; Region: Phage_portal; pfam04860 334390001473 Phage capsid family; Region: Phage_capsid; pfam05065 334390001474 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 334390001475 Phage major tail protein; Region: Phage_tail; pfam04630 334390001476 Protein of unknown function (DUF1268); Region: DUF1268; pfam06896 334390001477 Phage-related tail protein [Function unknown]; Region: COG5283 334390001478 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 334390001479 Phage tail protein; Region: Sipho_tail; cl11462 334390001480 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 334390001481 active site 334390001482 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 334390001483 NlpC/P60 family; Region: NLPC_P60; cl11438 334390001484 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 334390001485 endonuclease subunit; Provisional; Region: 46; PHA02562 334390001486 gp58-like protein; Region: Gp58; pfam07902 334390001487 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 334390001488 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 334390001489 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 334390001490 active site 334390001491 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 334390001492 putative peptidoglycan binding site; other site 334390001493 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 334390001494 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 334390001495 putative peptidoglycan binding site; other site 334390001496 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 334390001497 putative peptidoglycan binding site; other site 334390001498 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 334390001499 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 334390001500 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 334390001501 RNA binding surface [nucleotide binding]; other site 334390001502 septation ring formation regulator EzrA; Provisional; Region: PRK04778 334390001503 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 334390001504 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 334390001505 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334390001506 catalytic residue [active] 334390001507 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 334390001508 THUMP domain; Region: THUMP; cl12076 334390001509 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 334390001510 Ligand Binding Site [chemical binding]; other site 334390001511 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 334390001512 Glycerate kinase family; Region: Gly_kinase; cl00841 334390001513 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390001514 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 334390001515 dimer interface [polypeptide binding]; other site 334390001516 catalytic triad [active] 334390001517 peroxidatic and resolving cysteines [active] 334390001518 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 334390001519 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 334390001520 active site 334390001521 HIGH motif; other site 334390001522 nucleotide binding site [chemical binding]; other site 334390001523 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 334390001524 active site 334390001525 KMSKS motif; other site 334390001526 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 334390001527 tRNA binding surface [nucleotide binding]; other site 334390001528 anticodon binding site; other site 334390001529 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 334390001530 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 334390001531 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334390001532 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334390001533 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 334390001534 MPN+ (JAMM) motif; other site 334390001535 Zinc-binding site [ion binding]; other site 334390001536 rod shape-determining protein MreB; Provisional; Region: PRK13927 334390001537 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 334390001538 ATP binding site [chemical binding]; other site 334390001539 profilin binding site; other site 334390001540 rod shape-determining protein MreC; Provisional; Region: PRK13922 334390001541 rod shape-determining protein MreC; Region: MreC; pfam04085 334390001542 rod shape-determining protein MreD; Region: MreD; cl01087 334390001543 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 334390001544 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 334390001545 dimer interface [polypeptide binding]; other site 334390001546 conserved gate region; other site 334390001547 putative PBP binding loops; other site 334390001548 ABC-ATPase subunit interface; other site 334390001549 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334390001550 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 334390001551 Walker A/P-loop; other site 334390001552 ATP binding site [chemical binding]; other site 334390001553 Q-loop/lid; other site 334390001554 ABC transporter signature motif; other site 334390001555 Walker B; other site 334390001556 D-loop; other site 334390001557 H-loop/switch region; other site 334390001558 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 334390001559 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 334390001560 substrate binding pocket [chemical binding]; other site 334390001561 membrane-bound complex binding site; other site 334390001562 hinge residues; other site 334390001563 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 334390001564 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 334390001565 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 334390001566 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 334390001567 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 334390001568 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 334390001569 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 334390001570 competence damage-inducible protein A; Provisional; Region: PRK00549 334390001571 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 334390001572 putative MPT binding site; other site 334390001573 Competence-damaged protein; Region: CinA; cl00666 334390001574 recombinase A; Provisional; Region: recA; PRK09354 334390001575 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 334390001576 hexamer interface [polypeptide binding]; other site 334390001577 Walker A motif; other site 334390001578 ATP binding site [chemical binding]; other site 334390001579 Walker B motif; other site 334390001580 phosphodiesterase; Provisional; Region: PRK12704 334390001581 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 334390001582 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 334390001583 MutS domain I; Region: MutS_I; pfam01624 334390001584 MutS domain II; Region: MutS_II; pfam05188 334390001585 MutS family domain IV; Region: MutS_IV; pfam05190 334390001586 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 334390001587 Walker A/P-loop; other site 334390001588 ATP binding site [chemical binding]; other site 334390001589 Q-loop/lid; other site 334390001590 ABC transporter signature motif; other site 334390001591 Walker B; other site 334390001592 D-loop; other site 334390001593 H-loop/switch region; other site 334390001594 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 334390001595 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 334390001596 ATP binding site [chemical binding]; other site 334390001597 Mg2+ binding site [ion binding]; other site 334390001598 G-X-G motif; other site 334390001599 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 334390001600 ATP binding site [chemical binding]; other site 334390001601 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 334390001602 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 334390001603 RuvA N terminal domain; Region: RuvA_N; pfam01330 334390001604 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 334390001605 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 334390001606 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 334390001607 Walker A motif; other site 334390001608 ATP binding site [chemical binding]; other site 334390001609 Walker B motif; other site 334390001610 arginine finger; other site 334390001611 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 334390001612 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 334390001613 Preprotein translocase subunit; Region: YajC; cl00806 334390001614 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 334390001615 DHH family; Region: DHH; pfam01368 334390001616 DHHA1 domain; Region: DHHA1; pfam02272 334390001617 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 334390001618 DEAD-like helicases superfamily; Region: DEXDc; smart00487 334390001619 ATP binding site [chemical binding]; other site 334390001620 Mg++ binding site [ion binding]; other site 334390001621 motif III; other site 334390001622 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 334390001623 nucleotide binding region [chemical binding]; other site 334390001624 ATP-binding site [chemical binding]; other site 334390001625 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 334390001626 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: AlaRS_core; cd00673 334390001627 motif 1; other site 334390001628 active site 334390001629 motif 2; other site 334390001630 motif 3; other site 334390001631 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 334390001632 DHHA1 domain; Region: DHHA1; pfam02272 334390001633 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 334390001634 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 334390001635 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 334390001636 ribonuclease HIII; Provisional; Region: PRK00996 334390001637 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 334390001638 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 334390001639 RNA/DNA hybrid binding site [nucleotide binding]; other site 334390001640 active site 334390001641 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 334390001642 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 334390001643 Walker A/P-loop; other site 334390001644 ATP binding site [chemical binding]; other site 334390001645 Q-loop/lid; other site 334390001646 ABC transporter signature motif; other site 334390001647 Walker B; other site 334390001648 D-loop; other site 334390001649 H-loop/switch region; other site 334390001650 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 334390001651 Smr domain; Region: Smr; cl02619 334390001652 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 334390001653 catalytic residues [active] 334390001654 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-...; Region: ClC_like; cd01033 334390001655 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 334390001656 putative ion selectivity filter; other site 334390001657 putative pore gating glutamate residue; other site 334390001658 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 334390001659 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 334390001660 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A Ham1-...; Region: HAM1; cd00515 334390001661 active site 334390001662 dimerization interface [polypeptide binding]; other site 334390001663 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 334390001664 active site 334390001665 metal binding site [ion binding]; metal-binding site 334390001666 homotetramer interface [polypeptide binding]; other site 334390001667 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 334390001668 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 334390001669 active site 334390001670 motif I; other site 334390001671 motif II; other site 334390001672 Mechanosensitive ion channel; Region: MS_channel; pfam00924 334390001673 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 334390001674 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 334390001675 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 334390001676 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 334390001677 active site 334390001678 catabolite control protein A; Region: ccpA; TIGR01481 334390001679 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390001680 DNA binding site [nucleotide binding] 334390001681 domain linker motif; other site 334390001682 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 334390001683 dimerization interface [polypeptide binding]; other site 334390001684 effector binding site; other site 334390001685 Domain of unknown function DUF28; Region: DUF28; cl00361 334390001686 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 334390001687 putative peptidoglycan binding site; other site 334390001688 NlpC/P60 family; Region: NLPC_P60; cl11438 334390001689 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 334390001690 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 334390001691 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 334390001692 Walker A motif; other site 334390001693 ATP binding site [chemical binding]; other site 334390001694 Walker B motif; other site 334390001695 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 334390001696 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 334390001697 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 334390001698 Acetokinase family; Region: Acetate_kinase; cl01029 334390001699 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 334390001700 putative active site [active] 334390001701 putative metal binding site [ion binding]; other site 334390001702 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 334390001703 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 334390001704 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 334390001705 active site 334390001706 motif I; other site 334390001707 motif II; other site 334390001708 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 334390001709 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 334390001710 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...; Region: ArsC_Spx; cd03032 334390001711 putative catalytic residues [active] 334390001712 thiol/disulfide switch; other site 334390001713 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 334390001714 Competence protein CoiA-like family; Region: CoiA; cl11541 334390001715 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 334390001716 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 334390001717 synthetase active site [active] 334390001718 NTP binding site [chemical binding]; other site 334390001719 metal binding site [ion binding]; metal-binding site 334390001720 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 334390001721 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 334390001722 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 334390001723 active site 334390001724 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 334390001725 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 334390001726 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 334390001727 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 334390001728 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 334390001729 cell division protein MraZ; Reviewed; Region: PRK00326 334390001730 MraZ protein; Region: MraZ; pfam02381 334390001731 MraZ protein; Region: MraZ; pfam02381 334390001732 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 334390001733 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 334390001734 Septum formation initiator; Region: DivIC; cl11433 334390001735 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 334390001736 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 334390001737 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 334390001738 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 334390001739 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 334390001740 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 334390001741 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 334390001742 Mg++ binding site [ion binding]; other site 334390001743 putative catalytic motif [active] 334390001744 putative substrate binding site [chemical binding]; other site 334390001745 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 334390001746 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 334390001747 S-adenosylmethionine binding site [chemical binding]; other site 334390001748 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334390001749 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334390001750 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 334390001751 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl...; Region: GT1_MurG; cd03785 334390001752 active site 334390001753 homodimer interface [polypeptide binding]; other site 334390001754 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 334390001755 Cell division protein FtsQ; Region: FtsQ; pfam03799 334390001756 cell division protein FtsA; Region: ftsA; TIGR01174 334390001757 Cell division protein FtsA; Region: FtsA; cl11496 334390001758 Cell division protein FtsA; Region: FtsA; cl11496 334390001759 cell division protein FtsZ; Region: ftsZ; TIGR00065 334390001760 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum...; Region: FtsZ_type1; cd02201 334390001761 nucleotide binding site [chemical binding]; other site 334390001762 SulA interaction site; other site 334390001763 Protein of unknown function (DUF552); Region: DUF552; cl00775 334390001764 YGGT family; Region: YGGT; cl00508 334390001765 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 334390001766 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 334390001767 RNA binding surface [nucleotide binding]; other site 334390001768 DivIVA protein; Region: DivIVA; pfam05103 334390001769 DivIVA domain; Region: DivI1A_domain; TIGR03544 334390001770 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 334390001771 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 334390001772 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 334390001773 active site 334390001774 HIGH motif; other site 334390001775 nucleotide binding site [chemical binding]; other site 334390001776 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 334390001777 active site 334390001778 KMSKS motif; other site 334390001779 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 334390001780 tRNA binding surface [nucleotide binding]; other site 334390001781 anticodon binding site; other site 334390001782 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 334390001783 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 334390001784 DNA-binding site [nucleotide binding]; DNA binding site 334390001785 RNA-binding motif; other site 334390001786 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as...; Region: ADPRase_NUDT5; cd03424 334390001787 dimer interface [polypeptide binding]; other site 334390001788 ADP-ribose binding site [chemical binding]; other site 334390001789 active site 334390001790 nudix motif; other site 334390001791 metal binding site [ion binding]; metal-binding site 334390001792 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Provisional; Region: PRK07164 334390001793 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 334390001794 Domain of unknown function (DUF1831); Region: DUF1831; pfam08866 334390001795 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 334390001796 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 334390001797 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 334390001798 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 334390001799 active site 334390001800 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 334390001801 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334390001802 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 334390001803 NAD binding site [chemical binding]; other site 334390001804 dimer interface [polypeptide binding]; other site 334390001805 substrate binding site [chemical binding]; other site 334390001806 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 334390001807 catalytic core [active] 334390001808 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 334390001809 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 334390001810 binding surface 334390001811 TPR motif; other site 334390001812 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 334390001813 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 334390001814 RecD/TraA family; Region: recD_rel; TIGR01448 334390001815 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 334390001816 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 334390001817 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...; Region: ArsC_Spx; cd03032 334390001818 putative catalytic residues [active] 334390001819 thiol/disulfide switch; other site 334390001820 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 334390001821 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 334390001822 Protein of unknown function (DUF1447); Region: DUF1447; cl11492 334390001823 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(...; Region: Pep_deformylase; cd00487 334390001824 active site 334390001825 catalytic residues [active] 334390001826 metal binding site [ion binding]; metal-binding site 334390001827 Uncharacterised protein family (UPF0223); Region: UPF0223; cl11484 334390001828 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-1,6-; Region: IMPase_like; cd01637 334390001829 active site 334390001830 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 334390001831 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 334390001832 G1 box; other site 334390001833 putative GEF interaction site [polypeptide binding]; other site 334390001834 GTP/Mg2+ binding site [chemical binding]; other site 334390001835 Switch I region; other site 334390001836 G2 box; other site 334390001837 G3 box; other site 334390001838 Switch II region; other site 334390001839 G4 box; other site 334390001840 G5 box; other site 334390001841 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 334390001842 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a...; Region: BipA_TypA_C; cd03710 334390001843 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 334390001844 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; cl11453 334390001845 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 334390001846 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 334390001847 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 334390001848 active site 334390001849 (T/H)XGH motif; other site 334390001850 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 334390001851 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 334390001852 SLBB domain; Region: SLBB; pfam10531 334390001853 comEA protein; Region: comE; TIGR01259 334390001854 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 334390001855 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 334390001856 catalytic motif [active] 334390001857 Zn binding site [ion binding]; other site 334390001858 Competence protein; Region: Competence; cl00471 334390001859 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 334390001860 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 334390001861 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 334390001862 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390001863 Integrase core domain; Region: rve; cl01316 334390001864 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 334390001865 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole...; Region: Ribosomal_S15p_S13e; cd00353 334390001866 16S/18S rRNA binding site [nucleotide binding]; other site 334390001867 S13e-L30e interaction site [polypeptide binding]; other site 334390001868 25S rRNA binding site [nucleotide binding]; other site 334390001869 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl01099 334390001870 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 334390001871 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 334390001872 elongation factor Tu; Reviewed; Region: PRK00049 334390001873 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 334390001874 G1 box; other site 334390001875 GEF interaction site [polypeptide binding]; other site 334390001876 GTP/Mg2+ binding site [chemical binding]; other site 334390001877 Switch I region; other site 334390001878 G2 box; other site 334390001879 G3 box; other site 334390001880 Switch II region; other site 334390001881 G4 box; other site 334390001882 G5 box; other site 334390001883 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 334390001884 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 334390001885 Antibiotic Binding Site [chemical binding]; other site 334390001886 trigger factor; Provisional; Region: tig; PRK01490 334390001887 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 334390001888 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 334390001889 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 334390001890 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 334390001891 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 334390001892 Walker A motif; other site 334390001893 ATP binding site [chemical binding]; other site 334390001894 Walker B motif; other site 334390001895 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 334390001896 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 334390001897 G1 box; other site 334390001898 GTP/Mg2+ binding site [chemical binding]; other site 334390001899 Switch I region; other site 334390001900 G2 box; other site 334390001901 G3 box; other site 334390001902 Switch II region; other site 334390001903 G4 box; other site 334390001904 G5 box; other site 334390001905 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 334390001906 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 334390001907 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 334390001908 Walker A/P-loop; other site 334390001909 ATP binding site [chemical binding]; other site 334390001910 Q-loop/lid; other site 334390001911 ABC transporter signature motif; other site 334390001912 Walker B; other site 334390001913 D-loop; other site 334390001914 H-loop/switch region; other site 334390001915 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 334390001916 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 334390001917 UvrB/uvrC motif; Region: UVR; pfam02151 334390001918 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 334390001919 GTPase CgtA; Reviewed; Region: obgE; PRK12297 334390001920 GTP1/OBG; Region: GTP1_OBG; pfam01018 334390001921 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 334390001922 G1 box; other site 334390001923 GTP/Mg2+ binding site [chemical binding]; other site 334390001924 Switch I region; other site 334390001925 G2 box; other site 334390001926 G3 box; other site 334390001927 Switch II region; other site 334390001928 G4 box; other site 334390001929 G5 box; other site 334390001930 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 334390001931 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 334390001932 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 334390001933 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390001934 NAD(P) binding site [chemical binding]; other site 334390001935 active site 334390001936 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 334390001937 DHH family; Region: DHH; pfam01368 334390001938 DHHA1 domain; Region: DHHA1; pfam02272 334390001939 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 334390001940 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 334390001941 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 334390001942 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 334390001943 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390001944 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 334390001945 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 334390001946 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 334390001947 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 334390001948 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 334390001949 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 334390001950 dimer interface [polypeptide binding]; other site 334390001951 active site 334390001952 metal binding site [ion binding]; metal-binding site 334390001953 short chain dehydrogenase; Provisional; Region: PRK06940 334390001954 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390001955 NAD(P) binding site [chemical binding]; other site 334390001956 active site 334390001957 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 334390001958 active site 334390001959 substrate binding site [chemical binding]; other site 334390001960 trimer interface [polypeptide binding]; other site 334390001961 CoA binding site [chemical binding]; other site 334390001962 preprotein translocase subunit SecA; Reviewed; Region: PRK13107 334390001963 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 334390001964 putative substrate translocation pore; other site 334390001965 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334390001966 asparagine synthetase B; Provisional; Region: asnB; PRK09431 334390001967 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 334390001968 dimer interface [polypeptide binding]; other site 334390001969 active site 334390001970 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 334390001971 Ligand Binding Site [chemical binding]; other site 334390001972 Molecular Tunnel; other site 334390001973 Transposase IS200 like; Region: Y1_Tnp; cl00848 334390001974 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334390001975 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334390001976 Probable transposase; Region: OrfB_IS605; pfam01385 334390001977 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 334390001978 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 334390001979 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334390001980 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390001981 DNA binding site [nucleotide binding] 334390001982 domain linker motif; other site 334390001983 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 334390001984 dimerization interface [polypeptide binding]; other site 334390001985 ligand binding site [chemical binding]; other site 334390001986 sodium binding site [ion binding]; other site 334390001987 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl01450 334390001988 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 334390001989 Phage integrase family; Region: Phage_integrase; pfam00589 334390001990 Int/Topo IB signature motif; other site 334390001991 Ion channel; Region: Ion_trans_2; cl11596 334390001992 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 334390001993 non-specific DNA binding site [nucleotide binding]; other site 334390001994 salt bridge; other site 334390001995 sequence-specific DNA binding site [nucleotide binding]; other site 334390001996 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 334390001997 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; cl11557 334390001998 RecT family; Region: RecT; cl04285 334390001999 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 334390002000 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 334390002001 dimer interface [polypeptide binding]; other site 334390002002 ssDNA binding site [nucleotide binding]; other site 334390002003 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334390002004 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390002005 MULE transposase domain; Region: MULE; pfam10551 334390002006 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 334390002007 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 334390002008 MucBP domain; Region: MucBP; pfam06458 334390002009 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 334390002010 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 334390002011 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 334390002012 catalytic residues [active] 334390002013 catalytic nucleophile [active] 334390002014 Presynaptic Site I dimer interface [polypeptide binding]; other site 334390002015 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 334390002016 Synaptic Flat tetramer interface [polypeptide binding]; other site 334390002017 Synaptic Site I dimer interface [polypeptide binding]; other site 334390002018 DNA binding site [nucleotide binding] 334390002019 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; cl01116 334390002020 DNA-binding interface [nucleotide binding]; DNA binding site 334390002021 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390002022 Integrase core domain; Region: rve; cl01316 334390002023 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390002024 MULE transposase domain; Region: MULE; pfam10551 334390002025 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390002026 MULE transposase domain; Region: MULE; pfam10551 334390002027 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390002028 MULE transposase domain; Region: MULE; pfam10551 334390002029 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 334390002030 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 334390002031 Walker A/P-loop; other site 334390002032 ATP binding site [chemical binding]; other site 334390002033 Q-loop/lid; other site 334390002034 ABC transporter signature motif; other site 334390002035 Walker B; other site 334390002036 D-loop; other site 334390002037 H-loop/switch region; other site 334390002038 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 334390002039 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; cl01116 334390002040 putative transposase OrfB; Reviewed; Region: PHA02517 334390002041 Integrase core domain; Region: rve; cl01316 334390002042 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 334390002043 Transposase; Region: DDE_Tnp_ISL3; pfam01610 334390002044 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 334390002045 putative transposase OrfB; Reviewed; Region: PHA02517 334390002046 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 334390002047 Integrase core domain; Region: rve; cl01316 334390002048 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390002049 MULE transposase domain; Region: MULE; pfam10551 334390002050 putative transposase OrfB; Reviewed; Region: PHA02517 334390002051 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 334390002052 Integrase core domain; Region: rve; cl01316 334390002053 helicase Cas3; Provisional; Region: PRK09694 334390002054 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 334390002055 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl14882 334390002056 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390002057 MULE transposase domain; Region: MULE; pfam10551 334390002058 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cl08044 334390002059 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 334390002060 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 334390002061 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 334390002062 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 334390002063 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 334390002064 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 334390002065 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390002066 Integrase core domain; Region: rve; cl01316 334390002067 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390002068 MULE transposase domain; Region: MULE; pfam10551 334390002069 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390002070 MULE transposase domain; Region: MULE; pfam10551 334390002071 Integrase core domain; Region: rve; cl01316 334390002072 Domain of unknown function (DUF389); Region: DUF389; cl00781 334390002073 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 334390002074 Integrase core domain; Region: rve; cl01316 334390002075 '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 characterized by...; Region: init_cond_enzymes; cd00827 334390002076 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 334390002077 dimer interface [polypeptide binding]; other site 334390002078 active site 334390002079 LexA repressor; Validated; Region: PRK00215 334390002080 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390002081 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (...; Region: S24_LexA-like; cd06529 334390002082 Catalytic site [active] 334390002083 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 334390002084 Uncharacterised protein family (UPF0154); Region: UPF0154; cl01536 334390002085 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 334390002086 putative acyl-acceptor binding pocket; other site 334390002087 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 334390002088 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 334390002089 S-adenosylmethionine binding site [chemical binding]; other site 334390002090 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 334390002091 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 334390002092 rRNA interaction site [nucleotide binding]; other site 334390002093 S8 interaction site; other site 334390002094 putative laminin-1 binding site; other site 334390002095 elongation factor Ts; Provisional; Region: tsf; PRK09377 334390002096 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 334390002097 Elongation factor TS; Region: EF_TS; pfam00889 334390002098 Elongation factor TS; Region: EF_TS; pfam00889 334390002099 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control...; Region: AAK_UMPK-PyrH-Ec; cd04254 334390002100 putative nucleotide binding site [chemical binding]; other site 334390002101 uridine monophosphate binding site [chemical binding]; other site 334390002102 homohexameric interface [polypeptide binding]; other site 334390002103 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 334390002104 hinge region; other site 334390002105 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 334390002106 catalytic residue [active] 334390002107 putative FPP diphosphate binding site; other site 334390002108 putative FPP binding hydrophobic cleft; other site 334390002109 dimer interface [polypeptide binding]; other site 334390002110 putative IPP diphosphate binding site; other site 334390002111 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 334390002112 RIP metalloprotease RseP; Region: TIGR00054 334390002113 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 334390002114 active site 334390002115 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 334390002116 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most...; Region: PDZ_metalloprotease; cd00989 334390002117 protein binding site [polypeptide binding]; other site 334390002118 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 334390002119 putative substrate binding region [chemical binding]; other site 334390002120 prolyl-tRNA synthetase; Provisional; Region: PRK09194 334390002121 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: ProRS_core_prok; cd00779 334390002122 dimer interface [polypeptide binding]; other site 334390002123 motif 1; other site 334390002124 active site 334390002125 motif 2; other site 334390002126 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and single-...; Region: ProRS-INS; cd04334 334390002127 putative deacylase active site [active] 334390002128 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 334390002129 active site 334390002130 motif 3; other site 334390002131 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-...; Region: ProRS_anticodon_short; cd00861 334390002132 anticodon binding site; other site 334390002133 DNA polymerase III PolC; Validated; Region: polC; PRK00448 334390002134 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 334390002135 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 334390002136 generic binding surface II; other site 334390002137 generic binding surface I; other site 334390002138 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 334390002139 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 334390002140 active site 334390002141 substrate binding site [chemical binding]; other site 334390002142 catalytic site [active] 334390002143 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 334390002144 acetylornithine aminotransferase; Provisional; Region: argD; PRK02936 334390002145 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 334390002146 inhibitor-cofactor binding pocket; inhibition site 334390002147 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390002148 catalytic residue [active] 334390002149 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 334390002150 nucleotide binding site [chemical binding]; other site 334390002151 N-acetyl-L-glutamate binding site [chemical binding]; other site 334390002152 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...; Region: OAT; cd02152 334390002153 heterotetramer interface [polypeptide binding]; other site 334390002154 active site pocket [active] 334390002155 cleavage site 334390002156 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 334390002157 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390002158 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 334390002159 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 334390002160 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 334390002161 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 334390002162 catalytic site [active] 334390002163 subunit interface [polypeptide binding]; other site 334390002164 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 334390002165 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 334390002166 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 334390002167 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 334390002168 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 334390002169 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 334390002170 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 334390002171 ribosome maturation protein RimP; Reviewed; Region: PRK00092 334390002172 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 334390002173 Sm1 motif; other site 334390002174 predicted subunit interaction site [polypeptide binding]; other site 334390002175 RNA binding pocket [nucleotide binding]; other site 334390002176 Sm2 motif; other site 334390002177 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 334390002178 NusA N-terminal domain; Region: NusA_N; pfam08529 334390002179 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and...; Region: S1_NusA; cd04455 334390002180 RNA binding site [nucleotide binding]; other site 334390002181 homodimer interface [polypeptide binding]; other site 334390002182 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 334390002183 G-X-X-G motif; other site 334390002184 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 334390002185 putative RNA binding cleft [nucleotide binding]; other site 334390002186 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 334390002187 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 334390002188 translation initiation factor IF-2; Region: IF-2; TIGR00487 334390002189 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 334390002190 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 334390002191 G1 box; other site 334390002192 putative GEF interaction site [polypeptide binding]; other site 334390002193 GTP/Mg2+ binding site [chemical binding]; other site 334390002194 Switch I region; other site 334390002195 G2 box; other site 334390002196 G3 box; other site 334390002197 Switch II region; other site 334390002198 G4 box; other site 334390002199 G5 box; other site 334390002200 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the...; Region: IF2_mtIF2_II; cd03702 334390002201 Translation-initiation factor 2; Region: IF-2; pfam11987 334390002202 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation...; Region: mtIF2_IVc; cd03692 334390002203 Ribosome-binding factor A; Region: RBFA; cl00542 334390002204 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 334390002205 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 334390002206 RNA binding site [nucleotide binding]; other site 334390002207 active site 334390002208 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 334390002209 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 334390002210 active site 334390002211 Riboflavin kinase; Region: Flavokinase; pfam01687 334390002212 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 334390002213 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 334390002214 putative substrate translocation pore; other site 334390002215 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334390002216 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 334390002217 putative substrate translocation pore; other site 334390002218 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 334390002219 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 334390002220 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334390002221 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390002222 DNA binding site [nucleotide binding] 334390002223 domain linker motif; other site 334390002224 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 334390002225 dimerization interface [polypeptide binding]; other site 334390002226 ligand binding site [chemical binding]; other site 334390002227 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 334390002228 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 334390002229 dimer interface [polypeptide binding]; other site 334390002230 active site 334390002231 metal binding site [ion binding]; metal-binding site 334390002232 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 334390002233 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390002234 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 334390002235 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 334390002236 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD)...; Region: Trp-synth-beta_II; cl00342 334390002237 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334390002238 catalytic residue [active] 334390002239 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 334390002240 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; cl01116 334390002241 putative transposase OrfB; Reviewed; Region: PHA02517 334390002242 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 334390002243 Integrase core domain; Region: rve; cl01316 334390002244 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 334390002245 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390002246 HrcA protein C terminal domain; Region: HrcA; pfam01628 334390002247 heat shock protein GrpE; Provisional; Region: PRK14140 334390002248 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 334390002249 dimer interface [polypeptide binding]; other site 334390002250 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 334390002251 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 334390002252 chaperone protein DnaJ; Provisional; Region: PRK14276 334390002253 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of...; Region: DnaJ; cd06257 334390002254 HSP70 interaction site [polypeptide binding]; other site 334390002255 DnaJ central domain; Region: DnaJ_CXXCXGXG; cl14908 334390002256 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 334390002257 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 334390002258 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 334390002259 conserved cys residue [active] 334390002260 histidinol-phosphatase; Reviewed; Region: PRK08123 334390002261 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 334390002262 dimer interface [polypeptide binding]; other site 334390002263 motif 1; other site 334390002264 active site 334390002265 motif 2; other site 334390002266 motif 3; other site 334390002267 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 334390002268 E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent oxidation of L-histidinol to L-...; Region: Histidinol_dh; cd06572 334390002269 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 334390002270 NAD binding site [chemical binding]; other site 334390002271 dimerization interface [polypeptide binding]; other site 334390002272 product binding site; other site 334390002273 substrate binding site [chemical binding]; other site 334390002274 zinc binding site [ion binding]; other site 334390002275 catalytic residues [active] 334390002276 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 334390002277 putative active site pocket [active] 334390002278 4-fold oligomerization interface [polypeptide binding]; other site 334390002279 metal binding residues [ion binding]; metal-binding site 334390002280 3-fold/trimer interface [polypeptide binding]; other site 334390002281 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 334390002282 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 334390002283 putative active site [active] 334390002284 oxyanion strand; other site 334390002285 catalytic triad [active] 334390002286 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 334390002287 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 334390002288 catalytic residues [active] 334390002289 Imidazoleglycerol-phosphate synthase [Amino acid transport and metabolism]; Region: HisF; COG0107 334390002290 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-; Region: HisF; cd04731 334390002291 substrate binding site [chemical binding]; other site 334390002292 glutamase interaction surface [polypeptide binding]; other site 334390002293 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 334390002294 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 334390002295 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 334390002296 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 334390002297 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390002298 homodimer interface [polypeptide binding]; other site 334390002299 catalytic residue [active] 334390002300 GTP-binding protein LepA; Provisional; Region: PRK05433 334390002301 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 334390002302 G1 box; other site 334390002303 putative GEF interaction site [polypeptide binding]; other site 334390002304 GTP/Mg2+ binding site [chemical binding]; other site 334390002305 Switch I region; other site 334390002306 G2 box; other site 334390002307 G3 box; other site 334390002308 Switch II region; other site 334390002309 G4 box; other site 334390002310 G5 box; other site 334390002311 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-...; Region: lepA_II; cd03699 334390002312 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 334390002313 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 334390002314 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 334390002315 catalytic core [active] 334390002316 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 334390002317 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334390002318 catalytic residue [active] 334390002319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390002320 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 334390002321 L-serine binding site [chemical binding]; other site 334390002322 ACT domain interface; other site 334390002323 Predicted transcriptional regulator [Transcription]; Region: COG1959 334390002324 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390002325 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 334390002326 homopentamer interface [polypeptide binding]; other site 334390002327 active site 334390002328 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 334390002329 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 334390002330 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 334390002331 dimerization interface [polypeptide binding]; other site 334390002332 active site 334390002333 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 334390002334 Lumazine binding domain; Region: Lum_binding; pfam00677 334390002335 Lumazine binding domain; Region: Lum_binding; pfam00677 334390002336 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 334390002337 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 334390002338 catalytic motif [active] 334390002339 Zn binding site [ion binding]; other site 334390002340 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cl00161 334390002341 Integrase core domain; Region: rve; cl01316 334390002342 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 334390002343 putative transporter; Provisional; Region: PRK11462 334390002344 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_glc; cl00162 334390002345 HPr interaction site; other site 334390002346 glycerol kinase (GK) interaction site [polypeptide binding]; other site 334390002347 active site 334390002348 phosphorylation site [posttranslational modification] 334390002349 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 334390002350 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 334390002351 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 334390002352 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 334390002353 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 334390002354 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390002355 DNA binding site [nucleotide binding] 334390002356 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 334390002357 Ferritin-like domain; Region: Ferritin; pfam00210 334390002358 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 334390002359 dimerization interface [polypeptide binding]; other site 334390002360 DPS ferroxidase diiron center [ion binding]; other site 334390002361 ion pore; other site 334390002362 putative transposase OrfB; Reviewed; Region: PHA02517 334390002363 Integrase core domain; Region: rve; cl01316 334390002364 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390002365 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cl01055 334390002366 Integrase core domain; Region: rve; cl01316 334390002367 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 334390002368 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 334390002369 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334390002370 catalytic residue [active] 334390002371 Transposase IS200 like; Region: Y1_Tnp; cl00848 334390002372 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334390002373 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334390002374 Probable transposase; Region: OrfB_IS605; pfam01385 334390002375 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 334390002376 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 334390002377 Peptidase family M20/M25/M40; Region: Peptidase_M20; pfam01546 334390002378 metal binding site [ion binding]; metal-binding site 334390002379 dimer interface [polypeptide binding]; other site 334390002380 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 334390002381 Cadmium resistance transporter; Region: Cad; cl04177 334390002382 Protein of unknown function (DUF554); Region: DUF554; cl00784 334390002383 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 334390002384 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 334390002385 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 334390002386 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 334390002387 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 334390002388 catalytic Zn binding site [ion binding]; other site 334390002389 NAD binding site [chemical binding]; other site 334390002390 structural Zn binding site [ion binding]; other site 334390002391 Phosphate-starvation-inducible E; Region: PsiE; cl01264 334390002392 bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed; Region: PRK06427 334390002393 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 334390002394 dimer interface [polypeptide binding]; other site 334390002395 substrate binding site [chemical binding]; other site 334390002396 ATP binding site [chemical binding]; other site 334390002397 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5- (beta-...; Region: TMP_TenI; cd00564 334390002398 thiamine phosphate binding site [chemical binding]; other site 334390002399 active site 334390002400 pyrophosphate binding site [ion binding]; other site 334390002401 bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed; Region: PRK06427 334390002402 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 334390002403 dimer interface [polypeptide binding]; other site 334390002404 substrate binding site [chemical binding]; other site 334390002405 ATP binding site [chemical binding]; other site 334390002406 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 334390002407 substrate binding site [chemical binding]; other site 334390002408 multimerization interface [polypeptide binding]; other site 334390002409 ATP binding site [chemical binding]; other site 334390002410 conserved hypothetical integral membrane protein; Region: TIGR03766 334390002411 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 334390002412 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 334390002413 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334390002414 NAD binding site [chemical binding]; other site 334390002415 dimer interface [polypeptide binding]; other site 334390002416 substrate binding site [chemical binding]; other site 334390002417 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 334390002418 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 334390002419 S-adenosylmethionine binding site [chemical binding]; other site 334390002420 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 334390002421 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 334390002422 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 334390002423 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 334390002424 synthetase active site [active] 334390002425 NTP binding site [chemical binding]; other site 334390002426 metal binding site [ion binding]; metal-binding site 334390002427 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named...; Region: TGS_RelA_SpoT; cd01668 334390002428 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 334390002429 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but...; Region: Dtyr_deacylase; cd00563 334390002430 putative active site [active] 334390002431 dimerization interface [polypeptide binding]; other site 334390002432 putative tRNAtyr binding site [nucleotide binding]; other site 334390002433 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390002434 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 334390002435 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 334390002436 homodimer interface [polypeptide binding]; other site 334390002437 substrate-cofactor binding pocket; other site 334390002438 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390002439 catalytic residue [active] 334390002440 cystathionine gamma-synthase; Reviewed; Region: PRK08247 334390002441 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 334390002442 homodimer interface [polypeptide binding]; other site 334390002443 substrate-cofactor binding pocket; other site 334390002444 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390002445 catalytic residue [active] 334390002446 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...; Region: URO-D_CIMS_like; cl00464 334390002447 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 334390002448 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 334390002449 Walker A/P-loop; other site 334390002450 ATP binding site [chemical binding]; other site 334390002451 Q-loop/lid; other site 334390002452 ABC transporter signature motif; other site 334390002453 Walker B; other site 334390002454 D-loop; other site 334390002455 H-loop/switch region; other site 334390002456 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 334390002457 dimer interface [polypeptide binding]; other site 334390002458 conserved gate region; other site 334390002459 putative PBP binding loops; other site 334390002460 ABC-ATPase subunit interface; other site 334390002461 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 334390002462 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 334390002463 substrate binding pocket [chemical binding]; other site 334390002464 membrane-bound complex binding site; other site 334390002465 hinge residues; other site 334390002466 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 334390002467 dimer interface [polypeptide binding]; other site 334390002468 conserved gate region; other site 334390002469 putative PBP binding loops; other site 334390002470 ABC-ATPase subunit interface; other site 334390002471 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 334390002472 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 334390002473 dimer interface [polypeptide binding]; other site 334390002474 conserved gate region; other site 334390002475 putative PBP binding loops; other site 334390002476 ABC-ATPase subunit interface; other site 334390002477 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 334390002478 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 334390002479 Walker A/P-loop; other site 334390002480 ATP binding site [chemical binding]; other site 334390002481 Q-loop/lid; other site 334390002482 ABC transporter signature motif; other site 334390002483 Walker B; other site 334390002484 D-loop; other site 334390002485 H-loop/switch region; other site 334390002486 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 334390002487 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 334390002488 substrate binding pocket [chemical binding]; other site 334390002489 membrane-bound complex binding site; other site 334390002490 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390002491 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 334390002492 NAD(P) binding site [chemical binding]; other site 334390002493 active site 334390002494 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 334390002495 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390002496 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 334390002497 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 334390002498 conserved cys residue [active] 334390002499 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 334390002500 ethanolamine permease; Region: 2A0305; TIGR00908 334390002501 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 334390002502 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 334390002503 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 334390002504 active site 334390002505 substrate binding site [chemical binding]; other site 334390002506 ATP binding site [chemical binding]; other site 334390002507 Bacterial SH3 domain; Region: SH3_3; cl02551 334390002508 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 334390002509 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 334390002510 active site 334390002511 metal binding site [ion binding]; metal-binding site 334390002512 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 334390002513 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 334390002514 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 334390002515 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 334390002516 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 334390002517 dimer interface [polypeptide binding]; other site 334390002518 motif 1; other site 334390002519 active site 334390002520 motif 2; other site 334390002521 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 334390002522 anticodon binding site; other site 334390002523 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 334390002524 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 334390002525 dimer interface [polypeptide binding]; other site 334390002526 anticodon binding site; other site 334390002527 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 334390002528 homodimer interface [polypeptide binding]; other site 334390002529 motif 1; other site 334390002530 active site 334390002531 motif 2; other site 334390002532 GAD domain; Region: GAD; pfam02938 334390002533 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 334390002534 active site 334390002535 motif 3; other site 334390002536 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 334390002537 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 334390002538 catalytic triad [active] 334390002539 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 334390002540 GatB domain; Region: GatB_Yqey; cl11497 334390002541 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 334390002542 PhoH-like protein; Region: PhoH; cl12134 334390002543 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 334390002544 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 334390002545 GTPase Era; Reviewed; Region: era; PRK00089 334390002546 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 334390002547 G1 box; other site 334390002548 GTP/Mg2+ binding site [chemical binding]; other site 334390002549 Switch I region; other site 334390002550 G2 box; other site 334390002551 Switch II region; other site 334390002552 G3 box; other site 334390002553 G4 box; other site 334390002554 G5 box; other site 334390002555 Recombination protein O N terminal; Region: RecO_N; pfam11967 334390002556 DNA repair protein RecO; Region: reco; TIGR00613 334390002557 Recombination protein O C terminal; Region: RecO_C; pfam02565 334390002558 glycyl-tRNA synthetase, tetrameric type, alpha subunit; Region: glyQ; TIGR00388 334390002559 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 334390002560 dimer interface [polypeptide binding]; other site 334390002561 motif 1; other site 334390002562 active site 334390002563 motif 2; other site 334390002564 motif 3; other site 334390002565 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 334390002566 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 334390002567 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 334390002568 DNA primase; Validated; Region: dnaG; PRK05667 334390002569 CHC2 zinc finger; Region: zf-CHC2; cl02597 334390002570 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 334390002571 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 334390002572 active site 334390002573 metal binding site [ion binding]; metal-binding site 334390002574 interdomain interaction site; other site 334390002575 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 334390002576 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 334390002577 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 334390002578 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334390002579 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 334390002580 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 334390002581 DNA binding residues [nucleotide binding] 334390002582 putative transposase OrfB; Reviewed; Region: PHA02517 334390002583 Integrase core domain; Region: rve; cl01316 334390002584 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; cl01116 334390002585 Protein of unknown function (DUF322); Region: DUF322; cl00574 334390002586 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 334390002587 Transposase; Region: DDE_Tnp_ISL3; pfam01610 334390002588 ApbE family; Region: ApbE; cl00643 334390002589 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 334390002590 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 334390002591 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 334390002592 aspartate kinase; Reviewed; Region: PRK09034 334390002593 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 334390002594 putative catalytic residues [active] 334390002595 putative nucleotide binding site [chemical binding]; other site 334390002596 putative aspartate binding site [chemical binding]; other site 334390002597 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 334390002598 allosteric regulatory residue; other site 334390002599 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 334390002600 diaminopimelate decarboxylase; Region: lysA; TIGR01048 334390002601 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 334390002602 active site 334390002603 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 334390002604 substrate binding site [chemical binding]; other site 334390002605 catalytic residues [active] 334390002606 dimer interface [polypeptide binding]; other site 334390002607 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapD_N; pfam08503 334390002608 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 334390002609 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 334390002610 trimer interface [polypeptide binding]; other site 334390002611 active site 334390002612 substrate binding site [chemical binding]; other site 334390002613 CoA binding site [chemical binding]; other site 334390002614 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 334390002615 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 334390002616 metal binding site [ion binding]; metal-binding site 334390002617 putative dimer interface [polypeptide binding]; other site 334390002618 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 334390002619 dihydrodipicolinate synthase; Region: dapA; TIGR00674 334390002620 dimer interface [polypeptide binding]; other site 334390002621 active site 334390002622 catalytic residue [active] 334390002623 dihydrodipicolinate reductase; Provisional; Region: PRK00048 334390002624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390002625 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 334390002626 aspartate aminotransferase; Provisional; Region: PRK08361 334390002627 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 334390002628 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390002629 homodimer interface [polypeptide binding]; other site 334390002630 catalytic residue [active] 334390002631 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 334390002632 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390002633 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 334390002634 Cation transport protein; Region: TrkH; cl10514 334390002635 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 334390002636 Cation transport protein; Region: TrkH; cl10514 334390002637 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 334390002638 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390002639 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 334390002640 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 334390002641 Uncharacterized conserved protein [Function unknown]; Region: COG0327 334390002642 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 334390002643 peptidase T; Region: peptidase-T; TIGR01882 334390002644 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 334390002645 metal binding site [ion binding]; metal-binding site 334390002646 dimer interface [polypeptide binding]; other site 334390002647 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 334390002648 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 334390002649 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 334390002650 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 334390002651 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli...; Region: DnaE_OBF; cd04485 334390002652 generic binding surface I; other site 334390002653 generic binding surface II; other site 334390002654 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 334390002655 pyruvate kinase; Provisional; Region: PRK05826 334390002656 domain interfaces; other site 334390002657 active site 334390002658 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 334390002659 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 334390002660 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 334390002661 DNA binding site [nucleotide binding] 334390002662 Int/Topo IB signature motif; other site 334390002663 active site 334390002664 ScpA/B protein; Region: ScpA_ScpB; cl00598 334390002665 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 334390002666 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 334390002667 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 334390002668 RNA binding surface [nucleotide binding]; other site 334390002669 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 334390002670 active site 334390002671 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 334390002672 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 334390002673 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 334390002674 DEAD-like helicases superfamily; Region: DEXDc; smart00487 334390002675 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 334390002676 ATP binding site [chemical binding]; other site 334390002677 putative Mg++ binding site [ion binding]; other site 334390002678 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 334390002679 nucleotide binding region [chemical binding]; other site 334390002680 ATP-binding site [chemical binding]; other site 334390002681 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 334390002682 cytidylate kinase; Provisional; Region: cmk; PRK00023 334390002683 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 334390002684 CMP-binding site; other site 334390002685 The sites determining sugar specificity; other site 334390002686 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 334390002687 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 334390002688 RNA binding site [nucleotide binding]; other site 334390002689 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 334390002690 RNA binding site [nucleotide binding]; other site 334390002691 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 334390002692 RNA binding site [nucleotide binding]; other site 334390002693 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 of...; Region: S1_RPS1_repeat_hs4; cd05692 334390002694 RNA binding site [nucleotide binding]; other site 334390002695 GTP-binding protein Der; Reviewed; Region: PRK00093 334390002696 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 334390002697 G1 box; other site 334390002698 GTP/Mg2+ binding site [chemical binding]; other site 334390002699 Switch I region; other site 334390002700 G2 box; other site 334390002701 Switch II region; other site 334390002702 G3 box; other site 334390002703 G4 box; other site 334390002704 G5 box; other site 334390002705 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 334390002706 G1 box; other site 334390002707 GTP/Mg2+ binding site [chemical binding]; other site 334390002708 Switch I region; other site 334390002709 G2 box; other site 334390002710 G3 box; other site 334390002711 Switch II region; other site 334390002712 G4 box; other site 334390002713 G5 box; other site 334390002714 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-...; Region: HU_IHF; cd00591 334390002715 IHF dimer interface [polypeptide binding]; other site 334390002716 IHF - DNA interface [nucleotide binding]; other site 334390002717 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 334390002718 binding surface 334390002719 TPR motif; other site 334390002720 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 334390002721 binding surface 334390002722 TPR motif; other site 334390002723 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 334390002724 binding surface 334390002725 TPR motif; other site 334390002726 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 334390002727 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 334390002728 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 334390002729 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 334390002730 active site 334390002731 NTP binding site [chemical binding]; other site 334390002732 metal binding triad [ion binding]; metal-binding site 334390002733 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 334390002734 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 334390002735 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 334390002736 Walker A/P-loop; other site 334390002737 ATP binding site [chemical binding]; other site 334390002738 Q-loop/lid; other site 334390002739 ABC transporter signature motif; other site 334390002740 Walker B; other site 334390002741 D-loop; other site 334390002742 H-loop/switch region; other site 334390002743 ABC transporter; Region: ABC_tran_2; pfam12848 334390002744 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 334390002745 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 334390002746 dimerization interface [polypeptide binding]; other site 334390002747 active site 334390002748 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cd00209 334390002749 folate binding site [chemical binding]; other site 334390002750 NADP+ binding site [chemical binding]; other site 334390002751 Haemolysin-III related; Region: HlyIII; cl03831 334390002752 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 334390002753 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 334390002754 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390002755 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 334390002756 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 334390002757 trimer interface [polypeptide binding]; other site 334390002758 active site 334390002759 substrate binding site [chemical binding]; other site 334390002760 CoA binding site [chemical binding]; other site 334390002761 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 334390002762 active site 334390002763 catalytic triad [active] 334390002764 oxyanion hole [active] 334390002765 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 334390002766 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 334390002767 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 334390002768 YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases...; Region: YlqF; cd01856 334390002769 GTP/Mg2+ binding site [chemical binding]; other site 334390002770 G4 box; other site 334390002771 G5 box; other site 334390002772 G1 box; other site 334390002773 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 334390002774 Switch I region; other site 334390002775 G2 box; other site 334390002776 G3 box; other site 334390002777 Switch II region; other site 334390002778 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 334390002779 RNA/DNA hybrid binding site [nucleotide binding]; other site 334390002780 active site 334390002781 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 334390002782 DNA topoisomerase I; Validated; Region: PRK05582 334390002783 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in...; Region: TOPRIM_TopoIA_TopoI; cd03363 334390002784 active site 334390002785 interdomain interaction site; other site 334390002786 putative metal-binding site [ion binding]; other site 334390002787 nucleotide binding site [chemical binding]; other site 334390002788 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded...; Region: TOP1Ac; cd00186 334390002789 domain I; other site 334390002790 DNA binding groove [nucleotide binding] 334390002791 phosphate binding site [ion binding]; other site 334390002792 domain II; other site 334390002793 domain III; other site 334390002794 nucleotide binding site [chemical binding]; other site 334390002795 catalytic site [active] 334390002796 domain IV; other site 334390002797 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 334390002798 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 334390002799 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 334390002800 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 334390002801 DNA binding site [nucleotide binding] 334390002802 Int/Topo IB signature motif; other site 334390002803 active site 334390002804 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 334390002805 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 334390002806 active site 334390002807 catalytic residues [active] 334390002808 Domain of unknown function (DUF205); Region: DUF205; cl00410 334390002809 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 334390002810 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 334390002811 ATP binding site [chemical binding]; other site 334390002812 Mg2+ binding site [ion binding]; other site 334390002813 G-X-G motif; other site 334390002814 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 334390002815 anchoring element; other site 334390002816 dimer interface [polypeptide binding]; other site 334390002817 ATP binding site [chemical binding]; other site 334390002818 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of...; Region: TOPRIM_TopoIIA_GyrB; cd03366 334390002819 active site 334390002820 putative metal-binding site [ion binding]; other site 334390002821 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 334390002822 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 334390002823 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cd00187 334390002824 CAP-like domain; other site 334390002825 Active site [active] 334390002826 primary dimer interface [polypeptide binding]; other site 334390002827 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334390002828 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 334390002829 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 334390002830 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair; cl10010 334390002831 DHHA2 domain; Region: DHHA2; pfam02833 334390002832 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 334390002833 SelR domain; Region: SelR; cl00369 334390002834 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 334390002835 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 334390002836 GAF domain; Region: GAF; cl00853 334390002837 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 334390002838 Sodium:solute symporter family; Region: SSF; cl00456 334390002839 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and...; Region: Bact_CD; cd01293 334390002840 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 334390002841 active site 334390002842 recombination factor protein RarA; Reviewed; Region: PRK13342 334390002843 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 334390002844 Walker A motif; other site 334390002845 ATP binding site [chemical binding]; other site 334390002846 Walker B motif; other site 334390002847 arginine finger; other site 334390002848 MgsA AAA+ ATPase C terminal; Region: MgsA_C; cl13440 334390002849 Protein of unknown function (DUF554); Region: DUF554; cl00784 334390002850 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 334390002851 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 334390002852 Transposase; Region: DDE_Tnp_ISL3; pfam01610 334390002853 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 334390002854 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 334390002855 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 334390002856 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and alpha-...; Region: BCAT_beta_family; cd01557 334390002857 homodimer interface [polypeptide binding]; other site 334390002858 substrate-cofactor binding pocket; other site 334390002859 catalytic residue [active] 334390002860 maltose O-acetyltransferase; Provisional; Region: PRK10092 334390002861 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 334390002862 active site 334390002863 substrate binding site [chemical binding]; other site 334390002864 trimer interface [polypeptide binding]; other site 334390002865 CoA binding site [chemical binding]; other site 334390002866 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 334390002867 active site 334390002868 substrate binding site [chemical binding]; other site 334390002869 trimer interface [polypeptide binding]; other site 334390002870 Fic/DOC family; Region: Fic; cl00960 334390002871 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 334390002872 benzoate transport; Region: 2A0115; TIGR00895 334390002873 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 334390002874 putative substrate translocation pore; other site 334390002875 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 334390002876 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390002877 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 334390002878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390002879 homodimer interface [polypeptide binding]; other site 334390002880 catalytic residue [active] 334390002881 Phage minor capsid protein 2; Region: Phage_min_cap2; pfam06152 334390002882 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 334390002883 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 334390002884 substrate binding pocket [chemical binding]; other site 334390002885 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 334390002886 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 334390002887 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334390002888 Coenzyme A binding pocket [chemical binding]; other site 334390002889 Uncharacterized protein conserved in bacteria (DUF2316); Region: DUF2316; cl01805 334390002890 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 334390002891 putative active site [active] 334390002892 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and...; Region: Aldo_ket_red; cd06660 334390002893 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 334390002894 active site 334390002895 catalytic tetrad [active] 334390002896 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 334390002897 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase, 2-...; Region: ribokinase_pfkB_like; cl00192 334390002898 substrate binding site [chemical binding]; other site 334390002899 ATP binding site [chemical binding]; other site 334390002900 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 334390002901 isocitrate dehydrogenase; Validated; Region: PRK07362 334390002902 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 334390002903 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 334390002904 DNA binding site [nucleotide binding] 334390002905 Int/Topo IB signature motif; other site 334390002906 active site 334390002907 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 four-...; Region: Ntn_hydrolase; cl00467 334390002908 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 334390002909 active site 334390002910 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 334390002911 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390002912 homodimer interface [polypeptide binding]; other site 334390002913 catalytic residue [active] 334390002914 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 334390002915 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 334390002916 putative NAD(P) binding site [chemical binding]; other site 334390002917 catalytic Zn binding site [ion binding]; other site 334390002918 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 334390002919 Quinone oxidoreductase (QOR); Region: quinone_oxidoreductase_like_1; cd08243 334390002920 putative NAD(P) binding site [chemical binding]; other site 334390002921 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 334390002922 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 334390002923 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family...; Region: ABC_OpuCA_Osmoprotection; cd03295 334390002924 Walker A/P-loop; other site 334390002925 ATP binding site [chemical binding]; other site 334390002926 Q-loop/lid; other site 334390002927 ABC transporter signature motif; other site 334390002928 Walker B; other site 334390002929 D-loop; other site 334390002930 H-loop/switch region; other site 334390002931 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 334390002932 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 334390002933 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 334390002934 Predicted transcriptional regulator [Transcription]; Region: COG1959 334390002935 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390002936 OsmC-like protein; Region: OsmC; cl00767 334390002937 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 334390002938 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 334390002939 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 334390002940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390002941 NAD(P) binding site [chemical binding]; other site 334390002942 active site 334390002943 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 334390002944 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334390002945 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 334390002946 Phage integrase family; Region: Phage_integrase; pfam00589 334390002947 DNA binding site [nucleotide binding] 334390002948 Int/Topo IB signature motif; other site 334390002949 active site 334390002950 EamA-like transporter family; Region: EamA; cl01037 334390002951 EamA-like transporter family; Region: EamA; cl01037 334390002952 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 334390002953 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390002954 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 334390002955 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate 3-...; Region: IPMI_Swivel; cd01577 334390002956 substrate binding site [chemical binding]; other site 334390002957 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 334390002958 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 334390002959 substrate binding site [chemical binding]; other site 334390002960 ligand binding site [chemical binding]; other site 334390002961 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 334390002962 isocitrate dehydrogenase; Validated; Region: PRK06451 334390002963 benzoate transport; Region: 2A0115; TIGR00895 334390002964 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 334390002965 putative substrate translocation pore; other site 334390002966 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 334390002967 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 334390002968 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 334390002969 CoenzymeA binding site [chemical binding]; other site 334390002970 subunit interaction site [polypeptide binding]; other site 334390002971 PHB binding site; other site 334390002972 dihydroxynaphthoic acid synthetase; Validated; Region: PRK07396 334390002973 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 334390002974 substrate binding site [chemical binding]; other site 334390002975 oxyanion hole (OAH) forming residues; other site 334390002976 trimer interface [polypeptide binding]; other site 334390002977 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 334390002978 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 334390002979 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 334390002980 D-galactonate transporter; Region: 2A0114; TIGR00893 334390002981 putative substrate translocation pore; other site 334390002982 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 334390002983 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 334390002984 tetramer interface [polypeptide binding]; other site 334390002985 catalytic Zn binding site [ion binding]; other site 334390002986 NADP binding site [chemical binding]; other site 334390002987 cystathionine beta-lyase; Provisional; Region: PRK07671 334390002988 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 334390002989 homodimer interface [polypeptide binding]; other site 334390002990 substrate-cofactor binding pocket; other site 334390002991 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390002992 catalytic residue [active] 334390002993 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 334390002994 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 334390002995 dimer interface [polypeptide binding]; other site 334390002996 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390002997 catalytic residue [active] 334390002998 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 334390002999 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 334390003000 Predicted transcriptional regulator [Transcription]; Region: COG2378 334390003001 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390003002 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390003003 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cl01055 334390003004 Integrase core domain; Region: rve; cl01316 334390003005 EamA-like transporter family; Region: EamA; cl01037 334390003006 Telomeric repeat-binding factor 2; Region: TRF2; pfam11611 334390003007 FMN-binding domain; Region: FMN_bind; cl01081 334390003008 FAD binding domain; Region: FAD_binding_2; pfam00890 334390003009 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 334390003010 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334390003011 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390003012 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 334390003013 dimerization interface [polypeptide binding]; other site 334390003014 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 334390003015 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 334390003016 active site 334390003017 nucleophile elbow; other site 334390003018 putative acyltransferase; Provisional; Region: PRK05790 334390003019 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 334390003020 dimer interface [polypeptide binding]; other site 334390003021 active site 334390003022 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 334390003023 Domain of unknown function DUF20; Region: UPF0118; cl00465 334390003024 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 334390003025 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 334390003026 tetramer interfaces [polypeptide binding]; other site 334390003027 binuclear metal-binding site [ion binding]; other site 334390003028 Beta-lactamase; Region: Beta-lactamase; cl01009 334390003029 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; cl14892 334390003030 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 334390003031 putative active site [active] 334390003032 catalytic site [active] 334390003033 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08293 334390003034 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390003035 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 334390003036 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 334390003037 Peptidase family C69; Region: Peptidase_C69; cl01920 334390003038 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390003039 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cl01055 334390003040 Integrase core domain; Region: rve; cl01316 334390003041 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 334390003042 Amino acid permease; Region: AA_permease; pfam00324 334390003043 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 334390003044 TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 334390003045 TPP-binding site; other site 334390003046 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 334390003047 PYR/PP interface [polypeptide binding]; other site 334390003048 dimer interface [polypeptide binding]; other site 334390003049 TPP binding site [chemical binding]; other site 334390003050 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 334390003051 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 334390003052 Uncharacterized conserved protein [Function unknown]; Region: COG3410 334390003053 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 334390003054 active site 334390003055 multimer interface [polypeptide binding]; other site 334390003056 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390003057 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 334390003058 Acyltransferase family; Region: Acyl_transf_3; pfam01757 334390003059 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 334390003060 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 334390003061 substrate binding pocket [chemical binding]; other site 334390003062 membrane-bound complex binding site; other site 334390003063 hinge residues; other site 334390003064 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 334390003065 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390003066 homodimer interface [polypeptide binding]; other site 334390003067 catalytic residue [active] 334390003068 guanine deaminase; Provisional; Region: PRK09228 334390003069 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 334390003070 active site 334390003071 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 334390003072 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 334390003073 metal binding site [ion binding]; metal-binding site 334390003074 dimer interface [polypeptide binding]; other site 334390003075 Low molecular weight phosphatase family; Region: LMWPc; cl00105 334390003076 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 334390003077 active site 334390003078 catalytic site [active] 334390003079 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 334390003080 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 334390003081 DNA binding residues [nucleotide binding] 334390003082 putative dimer interface [polypeptide binding]; other site 334390003083 Uncharacterised protein family (UPF0014); Region: UPF0014; cl00424 334390003084 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 334390003085 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 334390003086 Walker A/P-loop; other site 334390003087 ATP binding site [chemical binding]; other site 334390003088 Q-loop/lid; other site 334390003089 ABC transporter signature motif; other site 334390003090 Walker B; other site 334390003091 D-loop; other site 334390003092 H-loop/switch region; other site 334390003093 acetolactate synthase; Reviewed; Region: PRK08617 334390003094 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 334390003095 PYR/PP interface [polypeptide binding]; other site 334390003096 dimer interface [polypeptide binding]; other site 334390003097 TPP binding site [chemical binding]; other site 334390003098 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 334390003099 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 334390003100 TPP-binding site [chemical binding]; other site 334390003101 dimer interface [polypeptide binding]; other site 334390003102 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 334390003103 Uncharacterized conserved protein [Function unknown]; Region: COG3410 334390003104 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 334390003105 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cl10457 334390003106 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 334390003107 CrcB-like protein; Region: CRCB; cl09114 334390003108 CrcB-like protein; Region: CRCB; cl09114 334390003109 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 334390003110 dimer interface [polypeptide binding]; other site 334390003111 metal binding site [ion binding]; metal-binding site 334390003112 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 334390003113 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 334390003114 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 334390003115 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...; Region: FNR_like; cd00322 334390003116 FAD binding pocket [chemical binding]; other site 334390003117 conserved FAD binding motif [chemical binding]; other site 334390003118 phosphate binding motif [ion binding]; other site 334390003119 beta-alpha-beta structure motif; other site 334390003120 NAD binding pocket [chemical binding]; other site 334390003121 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 334390003122 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 334390003123 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 334390003124 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390003125 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 334390003126 Phage integrase family; Region: Phage_integrase; pfam00589 334390003127 Int/Topo IB signature motif; other site 334390003128 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390003129 MULE transposase domain; Region: MULE; pfam10551 334390003130 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 334390003131 ATP binding site [chemical binding]; other site 334390003132 putative Mg++ binding site [ion binding]; other site 334390003133 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 334390003134 nucleotide binding region [chemical binding]; other site 334390003135 ATP-binding site [chemical binding]; other site 334390003136 Integrase core domain; Region: rve; cl01316 334390003137 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 334390003138 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl14882 334390003139 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 334390003140 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 334390003141 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390003142 Integrase core domain; Region: rve; cl01316 334390003143 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 334390003144 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 334390003145 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 334390003146 C-terminal domain; Region: RGG_Cterm; TIGR01716 334390003147 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 334390003148 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 334390003149 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 334390003150 gluconate transporter; Region: gntP; TIGR00791 334390003151 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 334390003152 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390003153 DNA binding site [nucleotide binding] 334390003154 domain linker motif; other site 334390003155 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 334390003156 putative dimerization interface [polypeptide binding]; other site 334390003157 putative ligand binding site [chemical binding]; other site 334390003158 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 334390003159 aspartate aminotransferase; Provisional; Region: PRK08361 334390003160 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 334390003161 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390003162 homodimer interface [polypeptide binding]; other site 334390003163 catalytic residue [active] 334390003164 VanZ like family; Region: VanZ; cl01971 334390003165 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl01099 334390003166 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 334390003167 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 334390003168 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 334390003169 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 334390003170 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 334390003171 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...; Region: MopB_Nitrate-R-NarG-like; cd02750 334390003172 [4Fe-4S] binding site [ion binding]; other site 334390003173 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 334390003174 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 334390003175 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 334390003176 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...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 334390003177 molybdopterin cofactor binding site; other site 334390003178 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 334390003179 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of...; Region: ThiF_MoeB_HesA_family; cd00757 334390003180 ATP binding site [chemical binding]; other site 334390003181 substrate interface [chemical binding]; other site 334390003182 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 334390003183 MPT binding site; other site 334390003184 trimer interface [polypeptide binding]; other site 334390003185 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 334390003186 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 334390003187 dimer interface [polypeptide binding]; other site 334390003188 putative functional site; other site 334390003189 putative MPT binding site; other site 334390003190 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a...; Region: MoaC_PE; cd01420 334390003191 trimer interface [polypeptide binding]; other site 334390003192 dimer interface [polypeptide binding]; other site 334390003193 putative active site [active] 334390003194 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 334390003195 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 334390003196 GTP binding site [chemical binding]; other site 334390003197 Histidine kinase; Region: HisKA_3; pfam07730 334390003198 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 334390003199 ATP binding site [chemical binding]; other site 334390003200 Mg2+ binding site [ion binding]; other site 334390003201 G-X-G motif; other site 334390003202 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 334390003203 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 334390003204 active site 334390003205 phosphorylation site [posttranslational modification] 334390003206 intermolecular recognition site; other site 334390003207 dimerization interface [polypeptide binding]; other site 334390003208 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 334390003209 DNA binding residues [nucleotide binding] 334390003210 dimerization interface [polypeptide binding]; other site 334390003211 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 334390003212 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 334390003213 S-adenosylmethionine binding site [chemical binding]; other site 334390003214 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 334390003215 Domain of unknown function DUF59; Region: DUF59; cl00941 334390003216 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 334390003217 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 334390003218 putative substrate translocation pore; other site 334390003219 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 334390003220 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 334390003221 FeS/SAM binding site; other site 334390003222 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 334390003223 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 334390003224 MoaE interaction surface [polypeptide binding]; other site 334390003225 MoeB interaction surface [polypeptide binding]; other site 334390003226 thiocarboxylated glycine; other site 334390003227 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 334390003228 MoaE homodimer interface [polypeptide binding]; other site 334390003229 MoaD interaction [polypeptide binding]; other site 334390003230 active site residues [active] 334390003231 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 334390003232 ABC-ATPase subunit interface; other site 334390003233 dimer interface [polypeptide binding]; other site 334390003234 putative PBP binding regions; other site 334390003235 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 334390003236 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 334390003237 Walker A/P-loop; other site 334390003238 ATP binding site [chemical binding]; other site 334390003239 Q-loop/lid; other site 334390003240 ABC transporter signature motif; other site 334390003241 Walker B; other site 334390003242 D-loop; other site 334390003243 H-loop/switch region; other site 334390003244 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 334390003245 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 334390003246 Domain of unknown function DUF59; Region: DUF59; cl00941 334390003247 Uncharacterized conserved protein [Function unknown]; Region: COG2461 334390003248 Family of unknown function (DUF438); Region: DUF438; pfam04282 334390003249 EamA-like transporter family; Region: EamA; cl01037 334390003250 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390003251 Integrase core domain; Region: rve; cl01316 334390003252 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 334390003253 putative ligand binding residues [chemical binding]; other site 334390003254 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 334390003255 FeS assembly protein SufB; Region: sufB; TIGR01980 334390003256 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 334390003257 trimerization site [polypeptide binding]; other site 334390003258 active site 334390003259 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 334390003260 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 334390003261 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334390003262 catalytic residue [active] 334390003263 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 334390003264 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 334390003265 FeS assembly ATPase SufC; Region: sufC; TIGR01978 334390003266 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 334390003267 Walker A/P-loop; other site 334390003268 ATP binding site [chemical binding]; other site 334390003269 Q-loop/lid; other site 334390003270 ABC transporter signature motif; other site 334390003271 Walker B; other site 334390003272 D-loop; other site 334390003273 H-loop/switch region; other site 334390003274 FeoA domain; Region: FeoA; cl00838 334390003275 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 334390003276 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 334390003277 G1 box; other site 334390003278 GTP/Mg2+ binding site [chemical binding]; other site 334390003279 Switch I region; other site 334390003280 G2 box; other site 334390003281 G3 box; other site 334390003282 Switch II region; other site 334390003283 G4 box; other site 334390003284 G5 box; other site 334390003285 Nucleoside recognition; Region: Gate; cl00486 334390003286 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 334390003287 Nucleoside recognition; Region: Gate; cl00486 334390003288 UbiA prenyltransferase family; Region: UbiA; cl00337 334390003289 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; COG1575 334390003290 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 334390003291 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 334390003292 substrate binding pocket [chemical binding]; other site 334390003293 chain length determination region; other site 334390003294 substrate-Mg2+ binding site; other site 334390003295 catalytic residues [active] 334390003296 aspartate-rich region 1; other site 334390003297 active site lid residues [active] 334390003298 aspartate-rich region 2; other site 334390003299 D-lactate dehydrogenase; Validated; Region: PRK08605 334390003300 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390003301 aspartate aminotransferase; Provisional; Region: PRK08361 334390003302 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 334390003303 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390003304 homodimer interface [polypeptide binding]; other site 334390003305 catalytic residue [active] 334390003306 shikimate kinase; Reviewed; Region: aroK; PRK00131 334390003307 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the...; Region: SK; cd00464 334390003308 ADP binding site [chemical binding]; other site 334390003309 magnesium binding site [ion binding]; other site 334390003310 putative shikimate binding site; other site 334390003311 prephenate dehydrogenase; Validated; Region: PRK06545 334390003312 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390003313 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 334390003314 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 334390003315 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 334390003316 hinge; other site 334390003317 active site 334390003318 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 334390003319 Tetramer interface [polypeptide binding]; other site 334390003320 Active site [active] 334390003321 FMN-binding site [chemical binding]; other site 334390003322 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 334390003323 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334390003324 putative substrate translocation pore; other site 334390003325 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 334390003326 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 334390003327 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 334390003328 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 334390003329 active site 334390003330 motif I; other site 334390003331 motif II; other site 334390003332 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 334390003333 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 334390003334 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 334390003335 NADP binding site [chemical binding]; other site 334390003336 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; cl14892 334390003337 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 334390003338 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 334390003339 putative substrate translocation pore; other site 334390003340 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 334390003341 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 334390003342 K+ potassium transporter; Region: K_trans; cl01227 334390003343 glycerol kinase; Provisional; Region: glpK; PRK00047 334390003344 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 334390003345 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 334390003346 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 334390003347 active site 1 [active] 334390003348 dimer interface [polypeptide binding]; other site 334390003349 hexamer interface [polypeptide binding]; other site 334390003350 active site 2 [active] 334390003351 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 334390003352 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 334390003353 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 334390003354 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390003355 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 334390003356 Peptidase family C69; Region: Peptidase_C69; cl01920 334390003357 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; cl14892 334390003358 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 334390003359 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 334390003360 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 334390003361 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334390003362 drug efflux system protein MdtG; Provisional; Region: PRK09874 334390003363 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 334390003364 putative substrate translocation pore; other site 334390003365 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 334390003366 Domain of unknown function DUF21; Region: DUF21; pfam01595 334390003367 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 334390003368 Transporter associated domain; Region: CorC_HlyC; pfam03471 334390003369 benzoate transport; Region: 2A0115; TIGR00895 334390003370 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 334390003371 putative substrate translocation pore; other site 334390003372 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 334390003373 dimerization interface [polypeptide binding]; other site 334390003374 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 334390003375 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390003376 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 334390003377 active site 334390003378 oxyanion hole [active] 334390003379 catalytic triad [active] 334390003380 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 334390003381 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 334390003382 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 334390003383 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 334390003384 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 334390003385 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 334390003386 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 334390003387 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 334390003388 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 334390003389 E3 interaction surface; other site 334390003390 lipoyl attachment site [posttranslational modification]; other site 334390003391 e3 binding domain; Region: E3_binding; pfam02817 334390003392 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 334390003393 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 334390003394 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 334390003395 alpha subunit interface [polypeptide binding]; other site 334390003396 TPP binding site [chemical binding]; other site 334390003397 heterodimer interface [polypeptide binding]; other site 334390003398 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 334390003399 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 334390003400 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 334390003401 tetramer interface [polypeptide binding]; other site 334390003402 TPP-binding site [chemical binding]; other site 334390003403 heterodimer interface [polypeptide binding]; other site 334390003404 phosphorylation loop region [posttranslational modification] 334390003405 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 334390003406 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 334390003407 AzlC protein; Region: AzlC; cl00570 334390003408 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 334390003409 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 334390003410 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390003411 catalytic residue [active] 334390003412 homoserine dehydrogenase; Provisional; Region: PRK06349 334390003413 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390003414 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 334390003415 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 334390003416 homoserine kinase; Provisional; Region: PRK01212 334390003417 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 334390003418 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 334390003419 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 334390003420 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 334390003421 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 334390003422 NAD(P) binding site [chemical binding]; other site 334390003423 putative active site [active] 334390003424 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 334390003425 Protein of unknown function (DUF328); Region: DUF328; cl01143 334390003426 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 334390003427 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 334390003428 Domain of unknown function (DUF814); Region: DUF814; pfam05670 334390003429 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390003430 MULE transposase domain; Region: MULE; pfam10551 334390003431 Low molecular weight phosphatase family; Region: LMWPc; cd00115 334390003432 Active site [active] 334390003433 Membrane transport protein; Region: Mem_trans; cl09117 334390003434 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 334390003435 dimerization interface [polypeptide binding]; other site 334390003436 putative DNA binding site [nucleotide binding]; other site 334390003437 putative Zn2+ binding site [ion binding]; other site 334390003438 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390003439 Integrase core domain; Region: rve; cl01316 334390003440 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334390003441 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390003442 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 334390003443 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 334390003444 active site 334390003445 zinc binding site [ion binding]; other site 334390003446 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 334390003447 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 334390003448 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 334390003449 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 334390003450 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 334390003451 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 334390003452 catalytic site [active] 334390003453 subunit interface [polypeptide binding]; other site 334390003454 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 334390003455 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 334390003456 RNA binding surface [nucleotide binding]; other site 334390003457 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 334390003458 active site 334390003459 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 334390003460 lipoprotein signal peptidase; Provisional; Region: PRK14787 334390003461 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 334390003462 RNA/DNA hybrid binding site [nucleotide binding]; other site 334390003463 active site 334390003464 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 334390003465 dimer interface [polypeptide binding]; other site 334390003466 FMN binding site [chemical binding]; other site 334390003467 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 334390003468 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 334390003469 substrate binding pocket [chemical binding]; other site 334390003470 membrane-bound complex binding site; other site 334390003471 hinge residues; other site 334390003472 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 334390003473 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 334390003474 dimer interface [polypeptide binding]; other site 334390003475 conserved gate region; other site 334390003476 putative PBP binding loops; other site 334390003477 ABC-ATPase subunit interface; other site 334390003478 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; cl01116 334390003479 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390003480 MULE transposase domain; Region: MULE; pfam10551 334390003481 putative transposase OrfB; Reviewed; Region: PHA02517 334390003482 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 334390003483 Integrase core domain; Region: rve; cl01316 334390003484 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 334390003485 putative transposase OrfB; Reviewed; Region: PHA02517 334390003486 Integrase core domain; Region: rve; cl01316 334390003487 amidase; Provisional; Region: PRK06529 334390003488 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 334390003489 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 334390003490 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 334390003491 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 334390003492 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 334390003493 nudix motif; other site 334390003494 AAA-like domain; Region: AAA_10; pfam12846 334390003495 Zonular occludens toxin (Zot); Region: Zot; cl01706 334390003496 Tet(M)-like subfamily. Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor...; Region: TetM_like; cd04168 334390003497 elongation factor G; Reviewed; Region: PRK12740 334390003498 G1 box; other site 334390003499 putative GEF interaction site [polypeptide binding]; other site 334390003500 GTP/Mg2+ binding site [chemical binding]; other site 334390003501 Switch I region; other site 334390003502 G2 box; other site 334390003503 G3 box; other site 334390003504 Switch II region; other site 334390003505 G4 box; other site 334390003506 G5 box; other site 334390003507 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 334390003508 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 334390003509 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 GTP-...; Region: Tet_C; cd03711 334390003510 cell division protein GpsB; Provisional; Region: PRK14127 334390003511 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 334390003512 Recombination protein U; Region: RecU; cl01314 334390003513 Transglycosylase; Region: Transgly; cl07896 334390003514 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 334390003515 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 334390003516 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 334390003517 EamA-like transporter family; Region: EamA; cl01037 334390003518 EamA-like transporter family; Region: EamA; cl01037 334390003519 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 334390003520 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and...; Region: Aldo_ket_red; cd06660 334390003521 active site 334390003522 catalytic tetrad [active] 334390003523 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 334390003524 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 334390003525 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 334390003526 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 334390003527 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 334390003528 putative dimer interface [polypeptide binding]; other site 334390003529 putative anticodon binding site; other site 334390003530 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well...; Region: AsxRS_core; cd00776 334390003531 homodimer interface [polypeptide binding]; other site 334390003532 motif 1; other site 334390003533 motif 2; other site 334390003534 active site 334390003535 motif 3; other site 334390003536 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 334390003537 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 334390003538 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 334390003539 active site 334390003540 substrate binding site [chemical binding]; other site 334390003541 catalytic site [active] 334390003542 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl09250 334390003543 mevalonate kinase; Region: mevalon_kin; TIGR00549 334390003544 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 334390003545 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 334390003546 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 334390003547 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 334390003548 Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 334390003549 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 334390003550 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 334390003551 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 334390003552 homotetramer interface [polypeptide binding]; other site 334390003553 FMN binding site [chemical binding]; other site 334390003554 homodimer contacts [polypeptide binding]; other site 334390003555 putative active site [active] 334390003556 putative substrate binding site [chemical binding]; other site 334390003557 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390003558 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 334390003559 Q-loop/lid; other site 334390003560 ABC transporter signature motif; other site 334390003561 Walker B; other site 334390003562 D-loop; other site 334390003563 H-loop/switch region; other site 334390003564 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390003565 MULE transposase domain; Region: MULE; pfam10551 334390003566 Transposase IS200 like; Region: Y1_Tnp; cl00848 334390003567 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 334390003568 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 334390003569 Uncharacterized conserved protein [Function unknown]; Region: COG3270 334390003570 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 334390003571 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 334390003572 active site 334390003573 motif I; other site 334390003574 motif II; other site 334390003575 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 334390003576 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 334390003577 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 334390003578 heterodimer interface [polypeptide binding]; other site 334390003579 active site 334390003580 FMN binding site [chemical binding]; other site 334390003581 homodimer interface [polypeptide binding]; other site 334390003582 substrate binding site [chemical binding]; other site 334390003583 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 334390003584 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 334390003585 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 334390003586 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 334390003587 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 334390003588 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 334390003589 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 334390003590 IMP binding site; other site 334390003591 dimer interface [polypeptide binding]; other site 334390003592 interdomain contacts; other site 334390003593 partial ornithine binding site; other site 334390003594 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 334390003595 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 334390003596 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 334390003597 catalytic site [active] 334390003598 subunit interface [polypeptide binding]; other site 334390003599 dihydroorotase; Validated; Region: pyrC; PRK09357 334390003600 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 334390003601 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 334390003602 active site 334390003603 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 334390003604 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 334390003605 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 334390003606 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; cl01116 334390003607 putative transposase OrfB; Reviewed; Region: PHA02517 334390003608 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 334390003609 Integrase core domain; Region: rve; cl01316 334390003610 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 334390003611 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 334390003612 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 334390003613 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 334390003614 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cl12004 334390003615 CRISPR-associated protein Cas8c/Csd1, subtype I-C/DVULG; Region: cas_Csd1; TIGR01863 334390003616 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 334390003617 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 334390003618 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390003619 MULE transposase domain; Region: MULE; pfam10551 334390003620 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 334390003621 CRISPR-associated helicase Cas3 [Defense mechanisms]; Region: COG1203 334390003622 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl14882 334390003623 putative transposase OrfB; Reviewed; Region: PHA02517 334390003624 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 334390003625 Integrase core domain; Region: rve; cl01316 334390003626 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; cl01116 334390003627 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 334390003628 Transposase; Region: DDE_Tnp_ISL3; pfam01610 334390003629 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 334390003630 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 334390003631 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 334390003632 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 334390003633 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 334390003634 RimM N-terminal domain; Region: RimM; pfam01782 334390003635 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 334390003636 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837; cl00794 334390003637 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 334390003638 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 334390003639 PhoU domain; Region: PhoU; pfam01895 334390003640 PhoU domain; Region: PhoU; pfam01895 334390003641 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 334390003642 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 334390003643 Walker A/P-loop; other site 334390003644 ATP binding site [chemical binding]; other site 334390003645 Q-loop/lid; other site 334390003646 ABC transporter signature motif; other site 334390003647 Walker B; other site 334390003648 D-loop; other site 334390003649 H-loop/switch region; other site 334390003650 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 334390003651 dimer interface [polypeptide binding]; other site 334390003652 conserved gate region; other site 334390003653 putative PBP binding loops; other site 334390003654 ABC-ATPase subunit interface; other site 334390003655 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 334390003656 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 334390003657 dimer interface [polypeptide binding]; other site 334390003658 conserved gate region; other site 334390003659 putative PBP binding loops; other site 334390003660 ABC-ATPase subunit interface; other site 334390003661 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 334390003662 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334390003663 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 334390003664 DNA binding site [nucleotide binding] 334390003665 signal recognition particle protein; Provisional; Region: PRK10867 334390003666 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 334390003667 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 334390003668 P loop; other site 334390003669 GTP binding site [chemical binding]; other site 334390003670 Signal peptide binding domain; Region: SRP_SPB; pfam02978 334390003671 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cl01055 334390003672 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 334390003673 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 334390003674 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 334390003675 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 334390003676 P loop; other site 334390003677 GTP binding site [chemical binding]; other site 334390003678 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 334390003679 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 334390003680 Walker A/P-loop; other site 334390003681 ATP binding site [chemical binding]; other site 334390003682 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 334390003683 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 334390003684 ABC transporter signature motif; other site 334390003685 Walker B; other site 334390003686 D-loop; other site 334390003687 H-loop/switch region; other site 334390003688 ribonuclease III; Reviewed; Region: rnc; PRK00102 334390003689 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in post-...; Region: RIBOc; cd00593 334390003690 dimerization interface [polypeptide binding]; other site 334390003691 active site 334390003692 metal binding site [ion binding]; metal-binding site 334390003693 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase...; Region: DSRM; cd00048 334390003694 dsRNA binding site [nucleotide binding]; other site 334390003695 Phosphopantetheine attachment site; Region: PP-binding; cl09936 334390003696 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 334390003697 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 334390003698 Y-family of DNA polymerases; Region: PolY; cl12025 334390003699 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 334390003700 ATP binding site [chemical binding]; other site 334390003701 putative Mg++ binding site [ion binding]; other site 334390003702 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 334390003703 nucleotide binding region [chemical binding]; other site 334390003704 ATP-binding site [chemical binding]; other site 334390003705 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 334390003706 DAK2 domain; Region: Dak2; cl03685 334390003707 Protein of unknown function (DUF322); Region: DUF322; cl00574 334390003708 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 334390003709 Thiamine pyrophosphokinase; Region: TPK; cd07995 334390003710 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 334390003711 active site 334390003712 dimerization interface [polypeptide binding]; other site 334390003713 thiamine binding site [chemical binding]; other site 334390003714 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative...; Region: RPE; cd00429 334390003715 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 334390003716 substrate binding site [chemical binding]; other site 334390003717 hexamer interface [polypeptide binding]; other site 334390003718 metal binding site [ion binding]; metal-binding site 334390003719 GTPase RsgA; Reviewed; Region: PRK00098 334390003720 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 334390003721 GTPase/OB domain interface [polypeptide binding]; other site 334390003722 GTPase/Zn-binding domain interface [polypeptide binding]; other site 334390003723 GTP/Mg2+ binding site [chemical binding]; other site 334390003724 G4 box; other site 334390003725 G5 box; other site 334390003726 G1 box; other site 334390003727 Switch I region; other site 334390003728 G2 box; other site 334390003729 G3 box; other site 334390003730 Switch II region; other site 334390003731 Catalytic domain of Protein Kinases; Region: PKc; cd00180 334390003732 active site 334390003733 ATP binding site [chemical binding]; other site 334390003734 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 334390003735 substrate binding site [chemical binding]; other site 334390003736 activation loop (A-loop); other site 334390003737 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 334390003738 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 334390003739 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 334390003740 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 334390003741 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 334390003742 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 334390003743 Active site [active] 334390003744 16S rRNA methyltransferase B; Provisional; Region: PRK14902 334390003745 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-...; Region: NusB_Sun; cl00223 334390003746 putative RNA binding site [nucleotide binding]; other site 334390003747 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 334390003748 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 334390003749 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 334390003750 putative active site [active] 334390003751 substrate binding site [chemical binding]; other site 334390003752 putative cosubstrate binding site; other site 334390003753 catalytic site [active] 334390003754 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 334390003755 substrate binding site [chemical binding]; other site 334390003756 primosome assembly protein PriA; Validated; Region: PRK05580 334390003757 primosome assembly protein PriA; Validated; Region: PRK05580 334390003758 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 334390003759 ATP binding site [chemical binding]; other site 334390003760 putative Mg++ binding site [ion binding]; other site 334390003761 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl14882 334390003762 Flavoprotein; Region: Flavoprotein; cl08021 334390003763 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 334390003764 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 334390003765 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 334390003766 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and...; Region: GMPK; cd00071 334390003767 catalytic site [active] 334390003768 G-X2-G-X-G-K; other site 334390003769 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 334390003770 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 334390003771 Walker A/P-loop; other site 334390003772 ATP binding site [chemical binding]; other site 334390003773 Q-loop/lid; other site 334390003774 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 334390003775 ABC transporter signature motif; other site 334390003776 Walker B; other site 334390003777 D-loop; other site 334390003778 H-loop/switch region; other site 334390003779 Arginine repressor [Transcription]; Region: ArgR; COG1438 334390003780 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 334390003781 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 334390003782 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 334390003783 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 334390003784 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 334390003785 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 334390003786 substrate binding pocket [chemical binding]; other site 334390003787 chain length determination region; other site 334390003788 substrate-Mg2+ binding site; other site 334390003789 catalytic residues [active] 334390003790 aspartate-rich region 1; other site 334390003791 active site lid residues [active] 334390003792 aspartate-rich region 2; other site 334390003793 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 334390003794 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 334390003795 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-...; Region: ExoVII_LU_OBF; cd04489 334390003796 generic binding surface II; other site 334390003797 generic binding surface I; other site 334390003798 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 334390003799 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 334390003800 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 334390003801 homodimer interface [polypeptide binding]; other site 334390003802 NADP binding site [chemical binding]; other site 334390003803 substrate binding site [chemical binding]; other site 334390003804 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-...; Region: NusB_Sun; cl00223 334390003805 putative RNA binding site [nucleotide binding]; other site 334390003806 Protein of unknown function (DUF322); Region: DUF322; cl00574 334390003807 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 334390003808 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 334390003809 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 334390003810 active site 334390003811 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 334390003812 Protein of unknown function (DUF464); Region: DUF464; cl01080 334390003813 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 334390003814 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334390003815 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334390003816 glutamine synthetase, type I; Region: GlnA; TIGR00653 334390003817 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 334390003818 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 334390003819 IPP transferase; Region: IPPT; cl00403 334390003820 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 334390003821 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 334390003822 active site residue [active] 334390003823 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 334390003824 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 334390003825 Bacterial protein of unknown function (DUF910); Region: DUF910; cl11543 334390003826 Rhomboid family; Region: Rhomboid; cl11446 334390003827 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 334390003828 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 334390003829 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 334390003830 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 334390003831 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 334390003832 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 334390003833 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 334390003834 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 334390003835 domain; Region: GreA_GreB_N; pfam03449 334390003836 C-term; Region: GreA_GreB; pfam01272 334390003837 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage...; Region: UMPK; cd02023 334390003838 Sugar specificity; other site 334390003839 Pyrimidine base specificity; other site 334390003840 ATP-binding site [chemical binding]; other site 334390003841 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 334390003842 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 334390003843 putative tRNA-binding site [nucleotide binding]; other site 334390003844 B3/4 domain; Region: B3_4; cl11458 334390003845 tRNA synthetase B5 domain; Region: B5; cl08394 334390003846 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 334390003847 dimer interface [polypeptide binding]; other site 334390003848 motif 1; other site 334390003849 motif 3; other site 334390003850 motif 2; other site 334390003851 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 334390003852 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 334390003853 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 334390003854 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 334390003855 dimer interface [polypeptide binding]; other site 334390003856 motif 1; other site 334390003857 active site 334390003858 motif 2; other site 334390003859 motif 3; other site 334390003860 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390003861 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 334390003862 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 334390003863 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 334390003864 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 334390003865 Acylphosphatase; Region: Acylphosphatase; cl00551 334390003866 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 334390003867 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(...; Region: Pep_deformylase; cd00487 334390003868 active site 334390003869 catalytic residues [active] 334390003870 metal binding site [ion binding]; metal-binding site 334390003871 MatE; Region: MatE; pfam01554 334390003872 MatE; Region: MatE; pfam01554 334390003873 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 334390003874 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 334390003875 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 334390003876 dimer interface [polypeptide binding]; other site 334390003877 phosphorylation site [posttranslational modification] 334390003878 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 334390003879 ATP binding site [chemical binding]; other site 334390003880 Mg2+ binding site [ion binding]; other site 334390003881 G-X-G motif; other site 334390003882 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334390003883 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 334390003884 active site 334390003885 phosphorylation site [posttranslational modification] 334390003886 intermolecular recognition site; other site 334390003887 dimerization interface [polypeptide binding]; other site 334390003888 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 334390003889 DNA binding site [nucleotide binding] 334390003890 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 334390003891 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 334390003892 hypothetical protein; Provisional; Region: PRK13670 334390003893 hypothetical protein; Provisional; Region: PRK13671 334390003894 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 334390003895 Domain of unknown function DUF143; Region: DUF143; cl00519 334390003896 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 334390003897 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334390003898 Zn2+ binding site [ion binding]; other site 334390003899 Mg2+ binding site [ion binding]; other site 334390003900 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 334390003901 active site 334390003902 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 334390003903 GTPase YqeH; Provisional; Region: PRK13796 334390003904 YqeH. YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically...; Region: YqeH; cd01855 334390003905 GTP/Mg2+ binding site [chemical binding]; other site 334390003906 G4 box; other site 334390003907 G5 box; other site 334390003908 G1 box; other site 334390003909 Switch I region; other site 334390003910 G2 box; other site 334390003911 G3 box; other site 334390003912 Switch II region; other site 334390003913 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 334390003914 active site 334390003915 motif I; other site 334390003916 motif II; other site 334390003917 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 334390003918 23S rRNA binding site [nucleotide binding]; other site 334390003919 L21 binding site [polypeptide binding]; other site 334390003920 L13 binding site [polypeptide binding]; other site 334390003921 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 334390003922 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 334390003923 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 334390003924 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 334390003925 primosomal protein DnaI; Reviewed; Region: PRK08939 334390003926 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 334390003927 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 334390003928 Walker A motif; other site 334390003929 ATP binding site [chemical binding]; other site 334390003930 Walker B motif; other site 334390003931 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 334390003932 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 334390003933 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 334390003934 ATP cone domain; Region: ATP-cone; pfam03477 334390003935 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 334390003936 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 334390003937 CoA-binding site [chemical binding]; other site 334390003938 ATP-binding [chemical binding]; other site 334390003939 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 334390003940 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 334390003941 DNA binding site [nucleotide binding] 334390003942 catalytic residue [active] 334390003943 H2TH interface [polypeptide binding]; other site 334390003944 putative catalytic residues [active] 334390003945 turnover-facilitating residue; other site 334390003946 intercalation triad [nucleotide binding]; other site 334390003947 8OG recognition residue [nucleotide binding]; other site 334390003948 putative reading head residues; other site 334390003949 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 334390003950 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 334390003951 DNA polymerase I; Provisional; Region: PRK05755 334390003952 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 334390003953 active site 334390003954 metal binding site 1 [ion binding]; metal-binding site 334390003955 putative 5' ssDNA interaction site; other site 334390003956 metal binding site 3; metal-binding site 334390003957 metal binding site 2 [ion binding]; metal-binding site 334390003958 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 334390003959 putative DNA binding site [nucleotide binding]; other site 334390003960 putative metal binding site [ion binding]; other site 334390003961 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 334390003962 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 334390003963 active site 334390003964 DNA binding site [nucleotide binding] 334390003965 catalytic site [active] 334390003966 Putative serine esterase (DUF676); Region: DUF676; pfam05057 334390003967 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 334390003968 BAX inhibitor (BI)-1 like protein family. Mammalian members of this family of small transmembrane proteins have been shown to have an antiapoptotic effect either by stimulating the antiapoptotic function of Bcl-2, a well characterized oncogene, or...; Region: BI-1-like; cd06181 334390003969 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 334390003970 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 334390003971 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334390003972 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334390003973 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 334390003974 putative tRNA-binding site [nucleotide binding]; other site 334390003975 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 334390003976 catalytic residues [active] 334390003977 Predicted small secreted protein [Function unknown]; Region: COG5584 334390003978 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 334390003979 S-adenosylmethionine binding site [chemical binding]; other site 334390003980 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 334390003981 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 334390003982 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 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 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 334390003991 HIT family signature motif; other site 334390003992 catalytic residue [active] 334390003993 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK02998 334390003994 SurA N-terminal domain; Region: SurA_N; pfam09312 334390003995 PPIC-type PPIASE domain; Region: Rotamase; cl08278 334390003996 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 334390003997 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 inactive in...; Region: YhaM_OBF_like; cd04492 334390003998 generic binding surface II; other site 334390003999 generic binding surface I; other site 334390004000 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334390004001 Zn2+ binding site [ion binding]; other site 334390004002 Mg2+ binding site [ion binding]; other site 334390004003 Protein of unknown function (DUF964); Region: DUF964; cl01483 334390004004 Transglycosylase; Region: Transgly; cl07896 334390004005 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 334390004006 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 334390004007 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 334390004008 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 334390004009 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 334390004010 active site 334390004011 HIGH motif; other site 334390004012 KMSK motif region; other site 334390004013 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 334390004014 tRNA binding surface [nucleotide binding]; other site 334390004015 anticodon binding site; other site 334390004016 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 334390004017 dihydropteroate synthase; Region: DHPS; TIGR01496 334390004018 substrate binding pocket [chemical binding]; other site 334390004019 dimer interface [polypeptide binding]; other site 334390004020 inhibitor binding site; inhibition site 334390004021 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A Ham1-...; Region: HAM1; cd00515 334390004022 active site 334390004023 dimerization interface [polypeptide binding]; other site 334390004024 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 334390004025 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334390004026 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334390004027 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 334390004028 GTP cyclohydrolase I; Provisional; Region: PLN03044 334390004029 active site 334390004030 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 334390004031 catalytic center binding site [active] 334390004032 ATP binding site [chemical binding]; other site 334390004033 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines...; Region: DHNA_DHNTPE; cd00534 334390004034 homooctamer interface [polypeptide binding]; other site 334390004035 active site 334390004036 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 334390004037 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334390004038 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390004039 DNA binding site [nucleotide binding] 334390004040 domain linker motif; other site 334390004041 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 334390004042 dimerization interface [polypeptide binding]; other site 334390004043 ligand binding site [chemical binding]; other site 334390004044 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 334390004045 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...; Region: dNK; cd01673 334390004046 Substrate-binding site [chemical binding]; other site 334390004047 Substrate specificity [chemical binding]; other site 334390004048 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 334390004049 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 334390004050 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 334390004051 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 334390004052 Ligand Binding Site [chemical binding]; other site 334390004053 dipeptidase PepV; Reviewed; Region: PRK07318 334390004054 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 334390004055 active site 334390004056 metal binding site [ion binding]; metal-binding site 334390004057 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 334390004058 putative substrate binding site [chemical binding]; other site 334390004059 putative ATP binding site [chemical binding]; other site 334390004060 Domain of unknown function DUF302; Region: DUF302; cl01364 334390004061 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 334390004062 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 334390004063 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 334390004064 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 334390004065 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 334390004066 HIGH motif; other site 334390004067 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 334390004068 active site 334390004069 KMSKS motif; other site 334390004070 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 334390004071 tRNA binding surface [nucleotide binding]; other site 334390004072 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 334390004073 active site 334390004074 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 334390004075 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 334390004076 putative catalytic cysteine [active] 334390004077 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 334390004078 nucleotide binding site [chemical binding]; other site 334390004079 homotetrameric interface [polypeptide binding]; other site 334390004080 putative phosphate binding site [ion binding]; other site 334390004081 putative allosteric binding site; other site 334390004082 S-adenosylmethionine synthetase; Validated; Region: PRK05250 334390004083 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 334390004084 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 334390004085 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 334390004086 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 334390004087 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 334390004088 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 334390004089 putative substrate translocation pore; other site 334390004090 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 334390004091 metal binding site 2 [ion binding]; metal-binding site 334390004092 putative DNA binding helix; other site 334390004093 metal binding site 1 [ion binding]; metal-binding site 334390004094 dimer interface [polypeptide binding]; other site 334390004095 structural Zn2+ binding site [ion binding]; other site 334390004096 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 334390004097 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 334390004098 dimerization interface [polypeptide binding]; other site 334390004099 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334390004100 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334390004101 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 334390004102 putative dimer interface [polypeptide binding]; other site 334390004103 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain...; Region: BFIT_BACH; cd03442 334390004104 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 334390004105 putative peptidoglycan binding site; other site 334390004106 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 334390004107 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 334390004108 tetramer interface [polypeptide binding]; other site 334390004109 catalytic Zn binding site [ion binding]; other site 334390004110 NADP binding site [chemical binding]; other site 334390004111 Permease family; Region: Xan_ur_permease; pfam00860 334390004112 Sulfate transporter family; Region: Sulfate_transp; cl00967 334390004113 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 334390004114 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 334390004115 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 334390004116 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cl14056 334390004117 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 334390004118 Class III ribonucleotide reductase; Region: RNR_III; cd01675 334390004119 effector binding site; other site 334390004120 active site 334390004121 Zn binding site [ion binding]; other site 334390004122 glycine loop; other site 334390004123 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 334390004124 dimer interface [polypeptide binding]; other site 334390004125 conserved gate region; other site 334390004126 putative PBP binding loops; other site 334390004127 ABC-ATPase subunit interface; other site 334390004128 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 334390004129 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 334390004130 substrate binding pocket [chemical binding]; other site 334390004131 membrane-bound complex binding site; other site 334390004132 hinge residues; other site 334390004133 Protein of unknown function (DUF1797); Region: DUF1797; cl11550 334390004134 Predicted integral membrane protein [Function unknown]; Region: COG0392 334390004135 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 334390004136 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 334390004137 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 334390004138 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 1,2-...; Region: GT1_UGDG_like; cd03817 334390004139 putative ADP-binding pocket [chemical binding]; other site 334390004140 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 334390004141 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 334390004142 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 334390004143 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 334390004144 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 334390004145 dimerization domain swap beta strand [polypeptide binding]; other site 334390004146 regulatory protein interface [polypeptide binding]; other site 334390004147 active site 334390004148 regulatory phosphorylation site [posttranslational modification]; other site 334390004149 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 334390004150 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 334390004151 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 334390004152 Walker A motif; other site 334390004153 ATP binding site [chemical binding]; other site 334390004154 Walker B motif; other site 334390004155 arginine finger; other site 334390004156 UvrB/uvrC motif; Region: UVR; pfam02151 334390004157 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 334390004158 Walker A motif; other site 334390004159 ATP binding site [chemical binding]; other site 334390004160 Walker B motif; other site 334390004161 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 334390004162 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or...; Region: Nudix_Hydrolase; cd02883 334390004163 nudix motif; other site 334390004164 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or...; Region: Nudix_Hydrolase; cl00447 334390004165 Isochorismatase family; Region: Isochorismatase; pfam00857 334390004166 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 334390004167 catalytic triad [active] 334390004168 conserved cis-peptide bond; other site 334390004169 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 334390004170 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...; Region: NAPRTase_A; cd01570 334390004171 active site 334390004172 Predicted membrane protein [Function unknown]; Region: COG4684 334390004173 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 334390004174 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390004175 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 334390004176 EamA-like transporter family; Region: EamA; cl01037 334390004177 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 334390004178 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334390004179 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 334390004180 Walker A/P-loop; other site 334390004181 ATP binding site [chemical binding]; other site 334390004182 Q-loop/lid; other site 334390004183 ABC transporter signature motif; other site 334390004184 Walker B; other site 334390004185 D-loop; other site 334390004186 H-loop/switch region; other site 334390004187 Predicted transcriptional regulators [Transcription]; Region: COG1725 334390004188 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334390004189 DNA-binding site [nucleotide binding]; DNA binding site 334390004190 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 334390004191 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 334390004192 NAD binding site [chemical binding]; other site 334390004193 substrate binding site [chemical binding]; other site 334390004194 homodimer interface [polypeptide binding]; other site 334390004195 active site 334390004196 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 334390004197 active site 334390004198 Predicted integral membrane protein [Function unknown]; Region: COG5617 334390004199 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 334390004200 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 334390004201 G1 box; other site 334390004202 putative GEF interaction site [polypeptide binding]; other site 334390004203 GTP/Mg2+ binding site [chemical binding]; other site 334390004204 Switch I region; other site 334390004205 G2 box; other site 334390004206 G3 box; other site 334390004207 Switch II region; other site 334390004208 G4 box; other site 334390004209 G5 box; other site 334390004210 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 334390004211 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 334390004212 Ligand binding site [chemical binding]; other site 334390004213 Putative Catalytic site [active] 334390004214 DXD motif; other site 334390004215 Predicted membrane protein (DUF2142); Region: DUF2142; cl01937 334390004216 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 334390004217 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 334390004218 Ligand binding site [chemical binding]; other site 334390004219 Putative Catalytic site [active] 334390004220 DXD motif; other site 334390004221 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 334390004222 Domain of unknown function DUF20; Region: UPF0118; cl00465 334390004223 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 334390004224 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 334390004225 Ligand binding site [chemical binding]; other site 334390004226 Putative Catalytic site [active] 334390004227 DXD motif; other site 334390004228 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 334390004229 NlpC/P60 family; Region: NLPC_P60; cl11438 334390004230 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; cl01116 334390004231 putative transposase OrfB; Reviewed; Region: PHA02517 334390004232 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 334390004233 Integrase core domain; Region: rve; cl01316 334390004234 Predicted O-acyltransferase [General function prediction only]; Region: COG3274; cl00792 334390004235 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 334390004236 active site 334390004237 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 334390004238 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 334390004239 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 334390004240 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 334390004241 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 334390004242 UDP-D-galactose:(glucosyl)lipopolysaccharide-1, 6-D-galactosyltransferase; Provisional; Region: PRK09922 334390004243 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 334390004244 putative ADP-binding pocket [chemical binding]; other site 334390004245 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390004246 Integrase core domain; Region: rve; cl01316 334390004247 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390004248 MULE transposase domain; Region: MULE; pfam10551 334390004249 putative transposase OrfB; Reviewed; Region: PHA02517 334390004250 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 334390004251 Integrase core domain; Region: rve; cl01316 334390004252 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; cl01116 334390004253 Integrase core domain; Region: rve; cl01316 334390004254 Bacterial sugar transferase; Region: Bac_transf; cl00939 334390004255 RecX family; Region: RecX; cl00936 334390004256 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 334390004257 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 334390004258 Sulfatase; Region: Sulfatase; cl10460 334390004259 methionine aminopeptidase; Reviewed; Region: PRK07281 334390004260 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 334390004261 active site 334390004262 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 334390004263 GtrA-like protein; Region: GtrA; cl00971 334390004264 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl14882 334390004265 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 334390004266 ATP binding site [chemical binding]; other site 334390004267 putative Mg++ binding site [ion binding]; other site 334390004268 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 334390004269 nucleotide binding region [chemical binding]; other site 334390004270 ATP-binding site [chemical binding]; other site 334390004271 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 334390004272 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390004273 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 334390004274 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl11406 334390004275 Malate/lactate dehydrogenases [Energy production and conversion]; Region: Mdh; COG0039 334390004276 NAD(P) binding site [chemical binding]; other site 334390004277 LDH/MDH dimer interface [polypeptide binding]; other site 334390004278 substrate binding site [chemical binding]; other site 334390004279 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl01099 334390004280 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 334390004281 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 334390004282 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 334390004283 Walker A/P-loop; other site 334390004284 ATP binding site [chemical binding]; other site 334390004285 ABC transporter signature motif; other site 334390004286 Walker B; other site 334390004287 D-loop; other site 334390004288 H-loop/switch region; other site 334390004289 ABC transporter; Region: ABC_tran_2; pfam12848 334390004290 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 334390004291 Ferritin-like domain; Region: Ferritin; pfam00210 334390004292 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 334390004293 dimerization interface [polypeptide binding]; other site 334390004294 DPS ferroxidase diiron center [ion binding]; other site 334390004295 ion pore; other site 334390004296 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 334390004297 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390004298 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 334390004299 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 334390004300 DNA binding site [nucleotide binding] 334390004301 active site 334390004302 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 334390004303 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 334390004304 S-adenosylmethionine binding site [chemical binding]; other site 334390004305 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 334390004306 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390004307 Predicted transcriptional regulator [Transcription]; Region: COG1959 334390004308 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390004309 multicopper oxidase; Provisional; Region: PRK10965 334390004310 Multicopper oxidase; Region: Cu-oxidase; cl14658 334390004311 Multicopper oxidase; Region: Cu-oxidase; cl14658 334390004312 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 334390004313 putative deacylase active site [active] 334390004314 Amidinotransferase; Region: Amidinotransf; cl12043 334390004315 Amidinotransferase; Region: Amidinotransf; cl12043 334390004316 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 334390004317 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 334390004318 putative transposase OrfB; Reviewed; Region: PHA02517 334390004319 Integrase core domain; Region: rve; cl01316 334390004320 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390004321 MULE transposase domain; Region: MULE; pfam10551 334390004322 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 334390004323 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 334390004324 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 334390004325 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 334390004326 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390004327 MULE transposase domain; Region: MULE; pfam10551 334390004328 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; cl01116 334390004329 putative transposase OrfB; Reviewed; Region: PHA02517 334390004330 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 334390004331 Integrase core domain; Region: rve; cl01316 334390004332 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 334390004333 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 334390004334 ligand binding site [chemical binding]; other site 334390004335 flexible hinge region; other site 334390004336 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 334390004337 putative switch regulator; other site 334390004338 non-specific DNA interactions [nucleotide binding]; other site 334390004339 DNA binding site [nucleotide binding] 334390004340 sequence specific DNA binding site [nucleotide binding]; other site 334390004341 putative cAMP binding site [chemical binding]; other site 334390004342 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 334390004343 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; cl00207 334390004344 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390004345 Integrase core domain; Region: rve; cl01316 334390004346 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390004347 MULE transposase domain; Region: MULE; pfam10551 334390004348 TRAM domain; Region: TRAM; cl01282 334390004349 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 334390004350 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 334390004351 S-adenosylmethionine binding site [chemical binding]; other site 334390004352 putative lipid kinase; Reviewed; Region: PRK13055 334390004353 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 334390004354 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 334390004355 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 334390004356 GatB domain; Region: GatB_Yqey; cl11497 334390004357 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 334390004358 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 334390004359 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 334390004360 CamS sex pheromone cAM373 precursor; Region: CamS; cl11554 334390004361 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 334390004362 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 334390004363 nucleotide binding pocket [chemical binding]; other site 334390004364 K-X-D-G motif; other site 334390004365 catalytic site [active] 334390004366 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 334390004367 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 334390004368 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 334390004369 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 334390004370 Dimer interface [polypeptide binding]; other site 334390004371 BRCT sequence motif; other site 334390004372 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 334390004373 UvrD/REP helicase; Region: UvrD-helicase; cl14126 334390004374 UvrD/REP helicase; Region: UvrD-helicase; cl14126 334390004375 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 334390004376 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 334390004377 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 334390004378 acetoin reductase; Validated; Region: PRK08643 334390004379 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 334390004380 NAD binding site [chemical binding]; other site 334390004381 homotetramer interface [polypeptide binding]; other site 334390004382 homodimer interface [polypeptide binding]; other site 334390004383 active site 334390004384 substrate binding site [chemical binding]; other site 334390004385 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 334390004386 putative catalytic site [active] 334390004387 putative metal binding site [ion binding]; other site 334390004388 putative phosphate binding site [ion binding]; other site 334390004389 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 334390004390 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 334390004391 23S rRNA interface [nucleotide binding]; other site 334390004392 L3 interface [polypeptide binding]; other site 334390004393 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 334390004394 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)...; Region: PseudoU_synth_EcTruA; cd02570 334390004395 dimerization interface 3.5A [polypeptide binding]; other site 334390004396 active site 334390004397 Cobalt transport protein; Region: CbiQ; cl00463 334390004398 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 334390004399 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 334390004400 Walker A/P-loop; other site 334390004401 ATP binding site [chemical binding]; other site 334390004402 Q-loop/lid; other site 334390004403 ABC transporter signature motif; other site 334390004404 Walker B; other site 334390004405 D-loop; other site 334390004406 H-loop/switch region; other site 334390004407 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 334390004408 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 334390004409 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 334390004410 Walker A/P-loop; other site 334390004411 ATP binding site [chemical binding]; other site 334390004412 Q-loop/lid; other site 334390004413 ABC transporter signature motif; other site 334390004414 Walker B; other site 334390004415 D-loop; other site 334390004416 H-loop/switch region; other site 334390004417 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 334390004418 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 334390004419 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 334390004420 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 334390004421 alphaNTD homodimer interface [polypeptide binding]; other site 334390004422 alphaNTD - beta interaction site [polypeptide binding]; other site 334390004423 alphaNTD - beta' interaction site [polypeptide binding]; other site 334390004424 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 334390004425 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 334390004426 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 334390004427 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 334390004428 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 334390004429 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 334390004430 rRNA binding site [nucleotide binding]; other site 334390004431 predicted 30S ribosome binding site; other site 334390004432 adenylate kinase; Reviewed; Region: adk; PRK00279 334390004433 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 334390004434 AMP-binding site [chemical binding]; other site 334390004435 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 334390004436 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 334390004437 SecY translocase; Region: SecY; pfam00344 334390004438 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 334390004439 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins...; Region: Ribosomal_L30; cd01658 334390004440 23S rRNA binding site [nucleotide binding]; other site 334390004441 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 334390004442 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 334390004443 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 334390004444 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 334390004445 5S rRNA interface [nucleotide binding]; other site 334390004446 L27 interface [polypeptide binding]; other site 334390004447 23S rRNA interface [nucleotide binding]; other site 334390004448 L5 interface [polypeptide binding]; other site 334390004449 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 334390004450 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 334390004451 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 334390004452 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 334390004453 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 334390004454 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 334390004455 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 334390004456 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 334390004457 KOW motif; Region: KOW; cl00354 334390004458 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 334390004459 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 334390004460 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where...; Region: Ribosomal_L29_HIP; cd00427 334390004461 23S rRNA interface [nucleotide binding]; other site 334390004462 putative translocon interaction site; other site 334390004463 signal recognition particle (SRP54) interaction site; other site 334390004464 L23 interface [polypeptide binding]; other site 334390004465 trigger factor interaction site; other site 334390004466 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 334390004467 23S rRNA interface [nucleotide binding]; other site 334390004468 5S rRNA interface [nucleotide binding]; other site 334390004469 putative antibiotic binding site [chemical binding]; other site 334390004470 L25 interface [polypeptide binding]; other site 334390004471 L27 interface [polypeptide binding]; other site 334390004472 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 334390004473 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The...; Region: 30S_S3_KH; cd02412 334390004474 G-X-X-G motif; other site 334390004475 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 334390004476 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 334390004477 putative translocon binding site; other site 334390004478 protein-rRNA interface [nucleotide binding]; other site 334390004479 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 334390004480 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 334390004481 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 334390004482 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 334390004483 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 334390004484 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 334390004485 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 334390004486 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 334390004487 elongation factor G; Reviewed; Region: PRK12739 334390004488 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 334390004489 G1 box; other site 334390004490 putative GEF interaction site [polypeptide binding]; other site 334390004491 GTP/Mg2+ binding site [chemical binding]; other site 334390004492 Switch I region; other site 334390004493 G2 box; other site 334390004494 G3 box; other site 334390004495 Switch II region; other site 334390004496 G4 box; other site 334390004497 G5 box; other site 334390004498 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide...; Region: EFG_mtEFG_II; cd04088 334390004499 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor...; Region: EFG_mtEFG1_IV; cd01434 334390004500 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor...; Region: EFG_mtEFG_C; cd03713 334390004501 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 334390004502 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 334390004503 16S rRNA interaction site [nucleotide binding]; other site 334390004504 streptomycin interaction site [chemical binding]; other site 334390004505 23S rRNA interaction site [nucleotide binding]; other site 334390004506 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 334390004507 Protein of unknown function (DUF998); Region: DUF998; cl01334 334390004508 Peptidase C26; Region: Peptidase_C26; pfam07722 334390004509 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 334390004510 catalytic triad [active] 334390004511 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 334390004512 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 334390004513 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 334390004514 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 334390004515 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 334390004516 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 334390004517 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 334390004518 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 334390004519 G-loop; other site 334390004520 DNA binding site [nucleotide binding] 334390004521 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 334390004522 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 334390004523 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 334390004524 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 334390004525 RPB1 interaction site [polypeptide binding]; other site 334390004526 RPB12 interaction site [polypeptide binding]; other site 334390004527 RPB10 interaction site [polypeptide binding]; other site 334390004528 RPB11 interaction site [polypeptide binding]; other site 334390004529 RPB3 interaction site [polypeptide binding]; other site 334390004530 RPB12 interaction site [polypeptide binding]; other site 334390004531 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334390004532 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334390004533 Clp protease ATP binding subunit; Region: clpC; CHL00095 334390004534 Clp amino terminal domain; Region: Clp_N; pfam02861 334390004535 Clp amino terminal domain; Region: Clp_N; pfam02861 334390004536 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 334390004537 Walker A motif; other site 334390004538 ATP binding site [chemical binding]; other site 334390004539 Walker B motif; other site 334390004540 arginine finger; other site 334390004541 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 334390004542 Walker A motif; other site 334390004543 ATP binding site [chemical binding]; other site 334390004544 Walker B motif; other site 334390004545 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 334390004546 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 334390004547 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 334390004548 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 334390004549 NAD binding site [chemical binding]; other site 334390004550 substrate binding site [chemical binding]; other site 334390004551 catalytic Zn binding site [ion binding]; other site 334390004552 tetramer interface [polypeptide binding]; other site 334390004553 structural Zn binding site [ion binding]; other site 334390004554 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390004555 Integrase core domain; Region: rve; cl01316 334390004556 B3/4 domain; Region: B3_4; cl11458 334390004557 Thiamine-precursor transporter protein (ThiW); Region: ThiW; cl01952 334390004558 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 334390004559 Bacitracin resistance protein BacA; Region: BacA; cl00858 334390004560 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 334390004561 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...; Region: dNK; cd01673 334390004562 Substrate-binding site [chemical binding]; other site 334390004563 Substrate specificity [chemical binding]; other site 334390004564 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 334390004565 Amino acid permease; Region: AA_permease; pfam00324 334390004566 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 334390004567 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 334390004568 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 334390004569 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 334390004570 active site 334390004571 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 334390004572 Uncharacterized conserved protein [Function unknown]; Region: COG2966 334390004573 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 334390004574 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 334390004575 DNA-binding site [nucleotide binding]; DNA binding site 334390004576 RNA-binding motif; other site 334390004577 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 334390004578 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390004579 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 334390004580 FeoA domain; Region: FeoA; cl00838 334390004581 Cation efflux family; Region: Cation_efflux; cl00316 334390004582 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 334390004583 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 334390004584 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 334390004585 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 334390004586 Ligand Binding Site [chemical binding]; other site 334390004587 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 334390004588 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 334390004589 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 334390004590 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 334390004591 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 334390004592 DNA binding residues [nucleotide binding] 334390004593 putative dimer interface [polypeptide binding]; other site 334390004594 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 334390004595 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334390004596 putative substrate translocation pore; other site 334390004597 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 334390004598 L-arabinose isomerase; Provisional; Region: PRK02929 334390004599 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...; Region: L-fuc_L-ara-isomerases; cl00947 334390004600 hexamer (dimer of trimers) interface [polypeptide binding]; other site 334390004601 substrate binding site [chemical binding]; other site 334390004602 trimer interface [polypeptide binding]; other site 334390004603 Mn binding site [ion binding]; other site 334390004604 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 334390004605 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 334390004606 putative substrate translocation pore; other site 334390004607 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 334390004608 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334390004609 DNA-binding site [nucleotide binding]; DNA binding site 334390004610 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334390004611 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 334390004612 putative dimerization interface [polypeptide binding]; other site 334390004613 putative ligand binding site [chemical binding]; other site 334390004614 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 334390004615 intersubunit interface [polypeptide binding]; other site 334390004616 active site 334390004617 Zn2+ binding site [ion binding]; other site 334390004618 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 334390004619 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 334390004620 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 334390004621 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 334390004622 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 334390004623 active site 334390004624 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 334390004625 Uncharacterized conserved protein [Function unknown]; Region: COG2898 334390004626 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 334390004627 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 334390004628 conserved cys residue [active] 334390004629 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 334390004630 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 334390004631 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 334390004632 Uncharacterized conserved protein [Function unknown]; Region: COG2966 334390004633 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 334390004634 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 334390004635 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334390004636 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390004637 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 334390004638 dimerization interface [polypeptide binding]; other site 334390004639 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390004640 MULE transposase domain; Region: MULE; pfam10551 334390004641 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390004642 Integrase core domain; Region: rve; cl01316 334390004643 putative transposase OrfB; Reviewed; Region: PHA02517 334390004644 Integrase core domain; Region: rve; cl01316 334390004645 putative transposase OrfB; Reviewed; Region: PHA02517 334390004646 Integrase core domain; Region: rve; cl01316 334390004647 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; cl01116 334390004648 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390004649 Integrase core domain; Region: rve; cl01316 334390004650 EcsC protein family; Region: EcsC; pfam12787 334390004651 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390004652 Integrase core domain; Region: rve; cl01316 334390004653 putative transposase OrfB; Reviewed; Region: PHA02517 334390004654 Integrase core domain; Region: rve; cl01316 334390004655 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 334390004656 active site 334390004657 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 334390004658 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIB_glc; cd00212 334390004659 active site turn [active] 334390004660 phosphorylation site [posttranslational modification] 334390004661 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 334390004662 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_glc; cd00210 334390004663 HPr interaction site; other site 334390004664 glycerol kinase (GK) interaction site [polypeptide binding]; other site 334390004665 active site 334390004666 phosphorylation site [posttranslational modification] 334390004667 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 334390004668 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_2; TIGR02822 334390004669 putative NAD(P) binding site [chemical binding]; other site 334390004670 putative substrate binding site [chemical binding]; other site 334390004671 catalytic Zn binding site [ion binding]; other site 334390004672 structural Zn binding site [ion binding]; other site 334390004673 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 334390004674 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 334390004675 substrate binding [chemical binding]; other site 334390004676 active site 334390004677 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 334390004678 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 334390004679 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334390004680 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390004681 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 334390004682 dimerization interface [polypeptide binding]; other site 334390004683 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 334390004684 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 334390004685 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 334390004686 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 334390004687 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 334390004688 Beta-lactamase; Region: Beta-lactamase; cl01009 334390004689 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 334390004690 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 334390004691 active site 334390004692 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 334390004693 Predicted HKD family nuclease [DNA replication, recombination, and repair]; Region: COG3886 334390004694 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 334390004695 putative homodimer interface [polypeptide binding]; other site 334390004696 putative active site [active] 334390004697 catalytic site [active] 334390004698 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 334390004699 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 334390004700 ATP binding site [chemical binding]; other site 334390004701 putative Mg++ binding site [ion binding]; other site 334390004702 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 334390004703 nucleotide binding region [chemical binding]; other site 334390004704 ATP-binding site [chemical binding]; other site 334390004705 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 334390004706 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 334390004707 active site 334390004708 8-oxo-dGMP binding site [chemical binding]; other site 334390004709 nudix motif; other site 334390004710 metal binding site [ion binding]; metal-binding site 334390004711 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334390004712 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 334390004713 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 334390004714 putative substrate translocation pore; other site 334390004715 Predicted transcriptional regulator [Transcription]; Region: COG2378 334390004716 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 334390004717 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 334390004718 C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 334390004719 substrate binding site [chemical binding]; other site 334390004720 THF binding site; other site 334390004721 zinc-binding site [ion binding]; other site 334390004722 asparagine synthetase A; Reviewed; Region: PRK06462 334390004723 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 334390004724 dimer interface [polypeptide binding]; other site 334390004725 active site 334390004726 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 334390004727 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 334390004728 DNA polymerase IV; Reviewed; Region: PRK03103 334390004729 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 334390004730 active site 334390004731 DNA binding site [nucleotide binding] 334390004732 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 334390004733 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 334390004734 DNA binding residues [nucleotide binding] 334390004735 putative dimer interface [polypeptide binding]; other site 334390004736 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 334390004737 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 334390004738 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 334390004739 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 334390004740 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 334390004741 carboxyltransferase (CT) interaction site; other site 334390004742 biotinylation site [posttranslational modification]; other site 334390004743 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 334390004744 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 334390004745 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 334390004746 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 334390004747 LamB/YcsF family; Region: LamB_YcsF; cl00664 334390004748 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 334390004749 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 334390004750 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 334390004751 putative substrate translocation pore; other site 334390004752 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 334390004753 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 334390004754 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 334390004755 catalytic residues [active] 334390004756 Membrane transport protein; Region: Mem_trans; cl09117 334390004757 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334390004758 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334390004759 Probable transposase; Region: OrfB_IS605; pfam01385 334390004760 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 334390004761 4-aminobutyrate aminotransferase; Provisional; Region: PRK08593 334390004762 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 334390004763 inhibitor-cofactor binding pocket; inhibition site 334390004764 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334390004765 catalytic residue [active] 334390004766 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 334390004767 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 334390004768 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 334390004769 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 334390004770 active site 334390004771 8-oxo-dGMP binding site [chemical binding]; other site 334390004772 nudix motif; other site 334390004773 metal binding site [ion binding]; metal-binding site 334390004774 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active...; Region: 4HBT; cd00586 334390004775 active site 334390004776 argininosuccinate lyase; Provisional; Region: PRK00855 334390004777 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 334390004778 active sites [active] 334390004779 tetramer interface [polypeptide binding]; other site 334390004780 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 334390004781 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 334390004782 ANP binding site [chemical binding]; other site 334390004783 Substrate Binding Site II [chemical binding]; other site 334390004784 Substrate Binding Site I [chemical binding]; other site 334390004785 conserved hypothetical integral membrane protein; Region: TIGR03766 334390004786 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 334390004787 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334390004788 M28, and M42; Region: Zinc_peptidase_like; cl14876 334390004789 FMN-binding domain; Region: FMN_bind; cl01081 334390004790 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334390004791 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 334390004792 Walker A/P-loop; other site 334390004793 ATP binding site [chemical binding]; other site 334390004794 Q-loop/lid; other site 334390004795 ABC transporter signature motif; other site 334390004796 Walker B; other site 334390004797 D-loop; other site 334390004798 H-loop/switch region; other site 334390004799 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 334390004800 FtsX-like permease family; Region: FtsX; pfam02687 334390004801 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334390004802 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334390004803 TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 334390004804 TPP-binding site; other site 334390004805 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 334390004806 Probable transposase; Region: OrfB_IS605; pfam01385 334390004807 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 334390004808 Transposase IS200 like; Region: Y1_Tnp; cl00848 334390004809 Domain of unknown function (DUF74); Region: DUF74; cl00426 334390004810 Nitronate monooxygenase; Region: NMO; pfam03060 334390004811 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...; Region: NPD_like; cd04730 334390004812 FMN binding site [chemical binding]; other site 334390004813 substrate binding site [chemical binding]; other site 334390004814 putative catalytic residue [active] 334390004815 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 334390004816 dimerization interface [polypeptide binding]; other site 334390004817 putative DNA binding site [nucleotide binding]; other site 334390004818 putative Zn2+ binding site [ion binding]; other site 334390004819 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 334390004820 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 334390004821 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 334390004822 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 334390004823 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 334390004824 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily...; Region: Heme_Cu_Oxidase_I; cl00275 334390004825 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 334390004826 synthetase active site [active] 334390004827 NTP binding site [chemical binding]; other site 334390004828 metal binding site [ion binding]; metal-binding site 334390004829 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390004830 MULE transposase domain; Region: MULE; pfam10551 334390004831 pantothenate kinase; Provisional; Region: PRK05439 334390004832 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in...; Region: PanK; cd02025 334390004833 ATP-binding site [chemical binding]; other site 334390004834 CoA-binding site [chemical binding]; other site 334390004835 Mg2+-binding site [ion binding]; other site 334390004836 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 334390004837 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 334390004838 classical (c) SDRs; Region: SDR_c; cd05233 334390004839 NAD(P) binding site [chemical binding]; other site 334390004840 active site 334390004841 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 334390004842 Sulfatase; Region: Sulfatase; cl10460 334390004843 EamA-like transporter family; Region: EamA; cl01037 334390004844 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 334390004845 EamA-like transporter family; Region: EamA; cl01037 334390004846 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 334390004847 UvrD/REP helicase; Region: UvrD-helicase; cl14126 334390004848 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 334390004849 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 334390004850 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 334390004851 catalytic core [active] 334390004852 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 334390004853 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 334390004854 G1 box; other site 334390004855 GTP/Mg2+ binding site [chemical binding]; other site 334390004856 Switch I region; other site 334390004857 G2 box; other site 334390004858 G3 box; other site 334390004859 Switch II region; other site 334390004860 G4 box; other site 334390004861 G5 box; other site 334390004862 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 334390004863 o-succinylbenzoic acid (OSB) synthetase; Region: menC_lowGC/arch; TIGR01928 334390004864 active site 334390004865 octamer interface [polypeptide binding]; other site 334390004866 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 334390004867 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 334390004868 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 334390004869 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334390004870 Coenzyme A binding pocket [chemical binding]; other site 334390004871 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 334390004872 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 334390004873 Predicted membrane protein [Function unknown]; Region: COG1511 334390004874 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 334390004875 ABC-2 type transporter; Region: ABC2_membrane; cl11417 334390004876 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 334390004877 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334390004878 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 334390004879 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 334390004880 active site 334390004881 catalytic residues [active] 334390004882 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 334390004883 metal binding site 2 [ion binding]; metal-binding site 334390004884 putative DNA binding helix; other site 334390004885 metal binding site 1 [ion binding]; metal-binding site 334390004886 dimer interface [polypeptide binding]; other site 334390004887 structural Zn2+ binding site [ion binding]; other site 334390004888 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and...; Region: GMPK; cd00071 334390004889 catalytic site [active] 334390004890 G-X2-G-X-G-K; other site 334390004891 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 334390004892 active site 334390004893 Ap4A binding cleft/pocket [chemical binding]; other site 334390004894 P4 phosphate binding site; other site 334390004895 nudix motif; other site 334390004896 putative P2/P3 phosphate binding site [ion binding]; other site 334390004897 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 334390004898 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; pfam09168 334390004899 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 334390004900 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 334390004901 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 334390004902 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 334390004903 motif II; other site 334390004904 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 334390004905 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 334390004906 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 334390004907 dimer interface [polypeptide binding]; other site 334390004908 putative radical transfer pathway; other site 334390004909 diiron center [ion binding]; other site 334390004910 tyrosyl radical; other site 334390004911 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 334390004912 dimer interface [polypeptide binding]; other site 334390004913 putative radical transfer pathway; other site 334390004914 diiron center [ion binding]; other site 334390004915 tyrosyl radical; other site 334390004916 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 334390004917 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 334390004918 Class I ribonucleotide reductase; Region: RNR_I; cd01679 334390004919 active site 334390004920 dimer interface [polypeptide binding]; other site 334390004921 catalytic residues [active] 334390004922 effector binding site; other site 334390004923 R2 peptide binding site; other site 334390004924 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 334390004925 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 334390004926 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 334390004927 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 334390004928 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 334390004929 Walker A/P-loop; other site 334390004930 ATP binding site [chemical binding]; other site 334390004931 Q-loop/lid; other site 334390004932 ABC transporter signature motif; other site 334390004933 Walker B; other site 334390004934 D-loop; other site 334390004935 H-loop/switch region; other site 334390004936 ABC transporter; Region: ABC_tran_2; pfam12848 334390004937 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 334390004938 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG2984 334390004939 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 334390004940 zinc binding site [ion binding]; other site 334390004941 putative ligand binding site [chemical binding]; other site 334390004942 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 334390004943 TM-ABC transporter signature motif; other site 334390004944 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 334390004945 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 334390004946 Walker A/P-loop; other site 334390004947 ATP binding site [chemical binding]; other site 334390004948 Q-loop/lid; other site 334390004949 ABC transporter signature motif; other site 334390004950 Walker B; other site 334390004951 D-loop; other site 334390004952 H-loop/switch region; other site 334390004953 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 334390004954 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 334390004955 MatE; Region: MatE; pfam01554 334390004956 MatE; Region: MatE; pfam01554 334390004957 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 334390004958 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 334390004959 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 334390004960 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 334390004961 active site 334390004962 dimer interface [polypeptide binding]; other site 334390004963 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 334390004964 dimer interface [polypeptide binding]; other site 334390004965 active site 334390004966 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334390004967 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390004968 DNA binding site [nucleotide binding] 334390004969 domain linker motif; other site 334390004970 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 334390004971 dimerization interface [polypeptide binding]; other site 334390004972 ligand binding site [chemical binding]; other site 334390004973 sodium binding site [ion binding]; other site 334390004974 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 334390004975 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390004976 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of...; Region: ribokinase; cd01174 334390004977 substrate binding site [chemical binding]; other site 334390004978 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 334390004979 dimer interface [polypeptide binding]; other site 334390004980 ATP binding site [chemical binding]; other site 334390004981 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 334390004982 catalytic residues [active] 334390004983 Integral membrane protein TerC family; Region: TerC; cl10468 334390004984 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 334390004985 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 334390004986 active site 334390004987 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 334390004988 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 334390004989 Permease family; Region: Xan_ur_permease; pfam00860 334390004990 Sulfate transporter family; Region: Sulfate_transp; cl00967 334390004991 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 334390004992 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390004993 NAD(P) binding site [chemical binding]; other site 334390004994 active site 334390004995 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 334390004996 catalytic core [active] 334390004997 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 334390004998 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 334390004999 Sulfatase; Region: Sulfatase; cl10460 334390005000 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 334390005001 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 334390005002 ligand binding site [chemical binding]; other site 334390005003 flexible hinge region; other site 334390005004 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390005005 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 334390005006 dinuclear metal binding motif [ion binding]; other site 334390005007 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; cl00207 334390005008 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 334390005009 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 334390005010 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 334390005011 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 334390005012 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 334390005013 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 334390005014 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...; Region: nuc_hydro_CaPnhB; cd02650 334390005015 active site 334390005016 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 334390005017 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 334390005018 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 334390005019 Walker A/P-loop; other site 334390005020 ATP binding site [chemical binding]; other site 334390005021 Q-loop/lid; other site 334390005022 ABC transporter signature motif; other site 334390005023 Walker B; other site 334390005024 D-loop; other site 334390005025 H-loop/switch region; other site 334390005026 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 334390005027 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 334390005028 Walker A/P-loop; other site 334390005029 ATP binding site [chemical binding]; other site 334390005030 Q-loop/lid; other site 334390005031 ABC transporter signature motif; other site 334390005032 Walker B; other site 334390005033 D-loop; other site 334390005034 H-loop/switch region; other site 334390005035 Cobalt transport protein; Region: CbiQ; cl00463 334390005036 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 334390005037 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 334390005038 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 334390005039 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 334390005040 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 334390005041 OsmC-like protein; Region: OsmC; cl00767 334390005042 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 334390005043 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 334390005044 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 334390005045 non-specific DNA binding site [nucleotide binding]; other site 334390005046 salt bridge; other site 334390005047 sequence-specific DNA binding site [nucleotide binding]; other site 334390005048 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 334390005049 Ligand Binding Site [chemical binding]; other site 334390005050 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 334390005051 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 334390005052 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 334390005053 putative substrate translocation pore; other site 334390005054 transketolase; Reviewed; Region: PRK05899 334390005055 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 334390005056 TPP-binding site [chemical binding]; other site 334390005057 dimer interface [polypeptide binding]; other site 334390005058 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 334390005059 PYR/PP interface [polypeptide binding]; other site 334390005060 dimer interface [polypeptide binding]; other site 334390005061 TPP binding site [chemical binding]; other site 334390005062 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 334390005063 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 334390005064 catalytic residue [active] 334390005065 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 334390005066 putative transposase OrfB; Reviewed; Region: PHA02517 334390005067 Integrase core domain; Region: rve; cl01316 334390005068 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 334390005069 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334390005070 active site 334390005071 dimer interface [polypeptide binding]; other site 334390005072 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 334390005073 Transposase; Region: DDE_Tnp_ISL3; pfam01610 334390005074 putative transposase OrfB; Reviewed; Region: PHA02517 334390005075 Integrase core domain; Region: rve; cl01316 334390005076 High-affinity nickel-transport protein; Region: NicO; cl00964 334390005077 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 334390005078 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 334390005079 Ligand Binding Site [chemical binding]; other site 334390005080 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-...; Region: MIP; cl00200 334390005081 amphipathic channel; other site 334390005082 Asn-Pro-Ala signature motifs; other site 334390005083 Protein of unknown function DUF111; Region: DUF111; pfam01969 334390005084 Uncharacterized conserved protein [Function unknown]; Region: COG1641; cl03398 334390005085 Uncharacterized conserved protein [Function unknown]; Region: COG1641; cl03398 334390005086 AIR carboxylase; Region: AIRC; cl00310 334390005087 Uncharacterized conserved protein [Function unknown]; Region: COG3875 334390005088 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 334390005089 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 334390005090 ligand binding site [chemical binding]; other site 334390005091 flexible hinge region; other site 334390005092 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390005093 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 334390005094 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 334390005095 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 334390005096 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 334390005097 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 334390005098 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 334390005099 putative substrate translocation pore; other site 334390005100 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 334390005101 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 334390005102 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of...; Region: ribokinase; cd01174 334390005103 substrate binding site [chemical binding]; other site 334390005104 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 334390005105 dimer interface [polypeptide binding]; other site 334390005106 ATP binding site [chemical binding]; other site 334390005107 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 334390005108 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 334390005109 DNA-binding interface [nucleotide binding]; DNA binding site 334390005110 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 334390005111 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 334390005112 intersubunit interface [polypeptide binding]; other site 334390005113 active site 334390005114 catalytic residue [active] 334390005115 deoxyribose mutarotase_like; Region: deoxyribose_mutarotase; cd09269 334390005116 active site 334390005117 catalytic residues [active] 334390005118 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of...; Region: ribokinase; cd01174 334390005119 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 334390005120 substrate binding site [chemical binding]; other site 334390005121 dimer interface [polypeptide binding]; other site 334390005122 ATP binding site [chemical binding]; other site 334390005123 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 334390005124 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390005125 DNA binding site [nucleotide binding] 334390005126 domain linker motif; other site 334390005127 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 334390005128 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 334390005129 putative phosphoketolase; Provisional; Region: PRK05261 334390005130 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 334390005131 TPP-binding site; other site 334390005132 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 334390005133 XFP C-terminal domain; Region: XFP_C; pfam09363 334390005134 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 334390005135 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 334390005136 active site 334390005137 motif I; other site 334390005138 motif II; other site 334390005139 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 334390005140 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334390005141 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 334390005142 DNA-binding site [nucleotide binding]; DNA binding site 334390005143 UTRA domain; Region: UTRA; cl06649 334390005144 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 334390005145 putative deacylase active site [active] 334390005146 Peptidase family C69; Region: Peptidase_C69; cl01920 334390005147 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 334390005148 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 334390005149 Domain of unknown function DUF21; Region: DUF21; pfam01595 334390005150 FOG: CBS domain [General function prediction only]; Region: COG0517 334390005151 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 334390005152 Transporter associated domain; Region: CorC_HlyC; pfam03471 334390005153 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 334390005154 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 334390005155 dimer interface [polypeptide binding]; other site 334390005156 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 334390005157 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 334390005158 putative substrate translocation pore; other site 334390005159 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 334390005160 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 334390005161 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 334390005162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390005163 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 334390005164 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 334390005165 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 334390005166 Ligand Binding Site [chemical binding]; other site 334390005167 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 334390005168 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 334390005169 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 334390005170 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 334390005171 NADP binding site [chemical binding]; other site 334390005172 homodimer interface [polypeptide binding]; other site 334390005173 active site 334390005174 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334390005175 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390005176 DNA binding site [nucleotide binding] 334390005177 domain linker motif; other site 334390005178 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 334390005179 putative dimerization interface [polypeptide binding]; other site 334390005180 putative ligand binding site [chemical binding]; other site 334390005181 oligoendopeptidase F; Region: pepF; TIGR00181 334390005182 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 334390005183 active site 334390005184 Zn binding site [ion binding]; other site 334390005185 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 334390005186 Predicted membrane protein [Function unknown]; Region: COG2364 334390005187 putative transposase OrfB; Reviewed; Region: PHA02517 334390005188 Integrase core domain; Region: rve; cl01316 334390005189 D-lactate dehydrogenase; Provisional; Region: PRK11183 334390005190 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 334390005191 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390005192 MULE transposase domain; Region: MULE; pfam10551 334390005193 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 334390005194 Protein of unknown function (DUF419); Region: DUF419; cl09948 334390005195 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 334390005196 Cupin domain; Region: Cupin_2; cl09118 334390005197 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 334390005198 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 334390005199 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 334390005200 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-...; Region: GH31; cl11402 334390005201 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390005202 MULE transposase domain; Region: MULE; pfam10551 334390005203 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390005204 MULE transposase domain; Region: MULE; pfam10551 334390005205 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 334390005206 Integrase core domain; Region: rve; cl01316 334390005207 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390005208 MULE transposase domain; Region: MULE; pfam10551 334390005209 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 334390005210 Presynaptic Site I dimer interface [polypeptide binding]; other site 334390005211 catalytic residues [active] 334390005212 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 334390005213 Synaptic Flat tetramer interface [polypeptide binding]; other site 334390005214 Synaptic Site I dimer interface [polypeptide binding]; other site 334390005215 DNA binding site [nucleotide binding] 334390005216 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334390005217 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 334390005218 Walker A/P-loop; other site 334390005219 ATP binding site [chemical binding]; other site 334390005220 Q-loop/lid; other site 334390005221 ABC transporter signature motif; other site 334390005222 Walker B; other site 334390005223 D-loop; other site 334390005224 H-loop/switch region; other site 334390005225 Transposase, Mutator family; Region: Transposase_mut; pfam00872 334390005226 MULE transposase domain; Region: MULE; pfam10551 334390005227 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 334390005228 aspartate-rich region 2; other site 334390005229 substrate-Mg2+ binding site; other site 334390005230 putative transposase OrfB; Reviewed; Region: PHA02517 334390005231 Integrase core domain; Region: rve; cl01316 334390005232 Integrase core domain; Region: rve; cl01316 334390005233 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334390005234 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390005235 DNA binding site [nucleotide binding] 334390005236 domain linker motif; other site 334390005237 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 334390005238 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 334390005239 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 334390005240 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 334390005241 galactokinase; Provisional; Region: PRK05322 334390005242 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 334390005243 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 334390005244 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 334390005245 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 334390005246 active site 334390005247 catalytic triad [active] 334390005248 oxyanion hole [active] 334390005249 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr (; Region: PTPc; cl00053 334390005250 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 334390005251 substrate binding site [chemical binding]; other site 334390005252 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 334390005253 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 334390005254 Walker A/P-loop; other site 334390005255 ATP binding site [chemical binding]; other site 334390005256 Q-loop/lid; other site 334390005257 ABC transporter signature motif; other site 334390005258 Walker B; other site 334390005259 D-loop; other site 334390005260 H-loop/switch region; other site 334390005261 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 334390005262 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 334390005263 dimer interface [polypeptide binding]; other site 334390005264 conserved gate region; other site 334390005265 putative PBP binding loops; other site 334390005266 ABC-ATPase subunit interface; other site 334390005267 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 334390005268 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 334390005269 substrate binding pocket [chemical binding]; other site 334390005270 membrane-bound complex binding site; other site 334390005271 hinge residues; other site 334390005272 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 334390005273 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334390005274 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 334390005275 domain; Region: GreA_GreB_N; pfam03449 334390005276 C-term; Region: GreA_GreB; pfam01272 334390005277 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 334390005278 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 ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 334390005279 putative ADP-ribose binding site [chemical binding]; other site 334390005280 putative active site [active] 334390005281 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 334390005282 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 334390005283 active site 334390005284 Zn binding site [ion binding]; other site 334390005285 Sulfate transporter family; Region: Sulfate_transp; cl00967 334390005286 Permease family; Region: Xan_ur_permease; pfam00860 334390005287 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 334390005288 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 334390005289 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 334390005290 active site 334390005291 DNA binding site [nucleotide binding] 334390005292 Protein of unknown function, DUF488; Region: DUF488; cl01246 334390005293 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 334390005294 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 334390005295 elongation factor P; Validated; Region: PRK00529 334390005296 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 334390005297 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 334390005298 RNA binding site [nucleotide binding]; other site 334390005299 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 334390005300 RNA binding site [nucleotide binding]; other site 334390005301 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334390005302 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334390005303 DNA binding site [nucleotide binding] 334390005304 domain linker motif; other site 334390005305 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 334390005306 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 334390005307 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 334390005308 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 334390005309 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 334390005310 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 334390005311 putative peptidoglycan binding site; other site 334390005312 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 334390005313 dimerization interface [polypeptide binding]; other site 334390005314 putative DNA binding site [nucleotide binding]; other site 334390005315 putative Zn2+ binding site [ion binding]; other site 334390005316 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 334390005317 Transposase; Region: DDE_Tnp_ISL3; pfam01610 334390005318 Arginine repressor [Transcription]; Region: ArgR; COG1438 334390005319 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 334390005320 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 334390005321 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334390005322 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 334390005323 Walker A/P-loop; other site 334390005324 ATP binding site [chemical binding]; other site 334390005325 Q-loop/lid; other site 334390005326 ABC transporter signature motif; other site 334390005327 Walker B; other site 334390005328 D-loop; other site 334390005329 H-loop/switch region; other site 334390005330 FtsX-like permease family; Region: FtsX; pfam02687 334390005331 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 334390005332 L-threonine dehydrogenase; Region: threonine_DH_like; cd08234 334390005333 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 334390005334 putative NAD(P) binding site [chemical binding]; other site 334390005335 catalytic Zn binding site [ion binding]; other site 334390005336 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 334390005337 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 334390005338 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 334390005339 active site 334390005340 dimer interface [polypeptide binding]; other site 334390005341 motif 1; other site 334390005342 motif 2; other site 334390005343 motif 3; other site 334390005344 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 334390005345 anticodon binding site; other site 334390005346 streptodornase; Region: PHA01790 334390005347 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 334390005348 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 334390005349 Catalytic site [active] 334390005350 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 334390005351 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 334390005352 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334390005353 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334390005354 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 334390005355 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 334390005356 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334390005357 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334390005358 exosortase 1 system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 334390005359 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 334390005360 active site 334390005361 dimer interface [polypeptide binding]; other site 334390005362 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 334390005363 Ligand Binding Site [chemical binding]; other site 334390005364 Molecular Tunnel; other site 334390005365 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 334390005366 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 334390005367 Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]; Region: GidA; COG0445 334390005368 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 334390005369 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 334390005370 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 334390005371 GTP/Mg2+ binding site [chemical binding]; other site 334390005372 G4 box; other site 334390005373 G5 box; other site 334390005374 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 334390005375 G1 box; other site 334390005376 G1 box; other site 334390005377 GTP/Mg2+ binding site [chemical binding]; other site 334390005378 Switch I region; other site 334390005379 Switch I region; other site 334390005380 G2 box; other site 334390005381 G2 box; other site 334390005382 Switch II region; other site 334390005383 G3 box; other site 334390005384 G3 box; other site 334390005385 Switch II region; other site 334390005386 G4 box; other site 334390005387 G5 box; other site 334390005388 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 334390005389 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 334390005390 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 334390005391 G-X-X-G motif; other site 334390005392 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 334390005393 RxxxH motif; other site 334390005394 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 334390005395 Ribonuclease P; Region: Ribonuclease_P; cl00457 334390005396 Ribosomal protein L34; Region: Ribosomal_L34; cl00370