-- dump date 20120504_150930 -- class Genbank::misc_feature -- table misc_feature_note -- id note 387344000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 387344000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 387344000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 387344000004 Walker A motif; other site 387344000005 ATP binding site [chemical binding]; other site 387344000006 Walker B motif; other site 387344000007 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344000008 arginine finger; other site 387344000009 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 387344000010 DnaA box-binding interface [nucleotide binding]; other site 387344000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 387344000012 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 387344000013 putative DNA binding surface [nucleotide binding]; other site 387344000014 dimer interface [polypeptide binding]; other site 387344000015 beta-clamp/clamp loader binding surface; other site 387344000016 beta-clamp/translesion DNA polymerase binding surface; other site 387344000017 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 387344000018 recombination protein F; Reviewed; Region: recF; PRK00064 387344000019 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 387344000020 Walker A/P-loop; other site 387344000021 ATP binding site [chemical binding]; other site 387344000022 Q-loop/lid; other site 387344000023 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344000024 ABC transporter signature motif; other site 387344000025 Walker B; other site 387344000026 D-loop; other site 387344000027 H-loop/switch region; other site 387344000028 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 387344000029 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 387344000030 Mg2+ binding site [ion binding]; other site 387344000031 G-X-G motif; other site 387344000032 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 387344000033 anchoring element; other site 387344000034 dimer interface [polypeptide binding]; other site 387344000035 ATP binding site [chemical binding]; other site 387344000036 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 387344000037 active site 387344000038 putative metal-binding site [ion binding]; other site 387344000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 387344000040 DNA gyrase subunit A; Validated; Region: PRK05560 387344000041 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 DNA...; Region: TOP4c; cd00187 387344000042 CAP-like domain; other site 387344000043 active site 387344000044 primary dimer interface [polypeptide binding]; other site 387344000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 387344000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 387344000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 387344000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 387344000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 387344000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 387344000051 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 387344000052 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 387344000053 dimer interface [polypeptide binding]; other site 387344000054 ssDNA binding site [nucleotide binding]; other site 387344000055 tetramer (dimer of dimers) interface [polypeptide binding]; other site 387344000056 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 387344000057 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 387344000058 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 387344000059 Amidohydrolase; Region: Amidohydro_4; pfam13147 387344000060 active site 387344000061 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 387344000062 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 387344000063 peptide binding site [polypeptide binding]; other site 387344000064 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 387344000065 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 387344000066 Amidohydrolase; Region: Amidohydro_4; pfam13147 387344000067 active site 387344000068 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 387344000069 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 387344000070 peptide binding site [polypeptide binding]; other site 387344000071 Helix-turn-helix domains; Region: HTH; cl00088 387344000072 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 387344000073 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 387344000074 DHH family; Region: DHH; pfam01368 387344000075 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 387344000076 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 387344000077 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 387344000078 replicative DNA helicase; Provisional; Region: PRK05748 387344000079 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 387344000080 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 387344000081 Walker A motif; other site 387344000082 ATP binding site [chemical binding]; other site 387344000083 Walker B motif; other site 387344000084 DNA binding loops [nucleotide binding] 387344000085 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 387344000086 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 387344000087 Major Facilitator Superfamily; Region: MFS_1; pfam07690 387344000088 putative substrate translocation pore; other site 387344000089 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 387344000090 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 387344000091 peptide binding site [polypeptide binding]; other site 387344000092 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 387344000093 active site 387344000094 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387344000095 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 387344000096 active site 387344000097 phosphorylation site [posttranslational modification] 387344000098 intermolecular recognition site; other site 387344000099 dimerization interface [polypeptide binding]; other site 387344000100 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 387344000101 DNA binding site [nucleotide binding] 387344000102 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 387344000103 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 387344000104 dimerization interface [polypeptide binding]; other site 387344000105 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 387344000106 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 387344000107 dimer interface [polypeptide binding]; other site 387344000108 phosphorylation site [posttranslational modification] 387344000109 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 387344000110 ATP binding site [chemical binding]; other site 387344000111 Mg2+ binding site [ion binding]; other site 387344000112 G-X-G motif; other site 387344000113 YycH protein; Region: YycH; pfam07435 387344000114 YycH protein; Region: YycI; cl02015 387344000115 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 387344000116 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 387344000117 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 387344000118 protein binding site [polypeptide binding]; other site 387344000119 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 387344000120 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 387344000121 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 387344000122 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 387344000123 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 387344000124 active site 387344000125 metal binding site [ion binding]; metal-binding site 387344000126 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 387344000127 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 387344000128 Coenzyme A binding pocket [chemical binding]; other site 387344000129 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344000130 Helix-turn-helix domains; Region: HTH; cl00088 387344000131 Integrase core domain; Region: rve; cl01316 387344000132 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 387344000133 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344000134 Transposase domain (DUF772); Region: DUF772; cl15789 387344000135 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 387344000136 Transposase domain (DUF772); Region: DUF772; cl15789 387344000137 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344000138 Helix-turn-helix domains; Region: HTH; cl00088 387344000139 Integrase core domain; Region: rve; cl01316 387344000140 Hexokinase; Region: Hexokinase_1; pfam00349 387344000141 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344000142 Helix-turn-helix domains; Region: HTH; cl00088 387344000143 Integrase core domain; Region: rve; cl01316 387344000144 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 387344000145 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 387344000146 substrate binding pocket [chemical binding]; other site 387344000147 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 387344000148 maltose O-acetyltransferase; Provisional; Region: PRK10092 387344000149 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 387344000150 active site 387344000151 substrate binding site [chemical binding]; other site 387344000152 trimer interface [polypeptide binding]; other site 387344000153 CoA binding site [chemical binding]; other site 387344000154 Cadmium resistance transporter; Region: Cad; cl04177 387344000155 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 387344000156 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 387344000157 GtrA-like protein; Region: GtrA; cl00971 387344000158 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 387344000159 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 387344000160 peptide binding site [polypeptide binding]; other site 387344000161 Helix-turn-helix domains; Region: HTH; cl00088 387344000162 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 387344000163 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 387344000164 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 387344000165 HicB family; Region: HicB; pfam05534 387344000166 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 387344000167 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 387344000168 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 387344000169 CoenzymeA binding site [chemical binding]; other site 387344000170 subunit interaction site [polypeptide binding]; other site 387344000171 PHB binding site; other site 387344000172 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 387344000173 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 387344000174 substrate binding site [chemical binding]; other site 387344000175 oxyanion hole (OAH) forming residues; other site 387344000176 trimer interface [polypeptide binding]; other site 387344000177 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 387344000178 AMP-binding enzyme; Region: AMP-binding; cl15778 387344000179 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 387344000180 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 387344000181 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 387344000182 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 387344000183 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 387344000184 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 387344000185 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 387344000186 dimer interface [polypeptide binding]; other site 387344000187 putative anticodon binding site; other site 387344000188 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 387344000189 motif 1; other site 387344000190 active site 387344000191 motif 2; other site 387344000192 motif 3; other site 387344000193 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 387344000194 Major Facilitator Superfamily; Region: MFS_1; pfam07690 387344000195 putative substrate translocation pore; other site 387344000196 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 387344000197 Helix-turn-helix domains; Region: HTH; cl00088 387344000198 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 387344000199 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 387344000200 putative NAD(P) binding site [chemical binding]; other site 387344000201 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 387344000202 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 387344000203 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 387344000204 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 387344000205 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 387344000206 catalytic residue [active] 387344000207 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 387344000208 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 387344000209 HIGH motif; other site 387344000210 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 387344000211 active site 387344000212 KMSKS motif; other site 387344000213 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 387344000214 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 387344000215 peroxiredoxin; Region: AhpC; TIGR03137 387344000216 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 387344000217 dimer interface [polypeptide binding]; other site 387344000218 decamer (pentamer of dimers) interface [polypeptide binding]; other site 387344000219 catalytic triad [active] 387344000220 peroxidatic and resolving cysteines [active] 387344000221 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 387344000222 NADH(P)-binding; Region: NAD_binding_10; pfam13460 387344000223 NAD(P) binding site [chemical binding]; other site 387344000224 putative active site [active] 387344000225 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 387344000226 non-specific DNA binding site [nucleotide binding]; other site 387344000227 salt bridge; other site 387344000228 sequence-specific DNA binding site [nucleotide binding]; other site 387344000229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344000230 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 387344000231 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 387344000232 Helix-turn-helix domains; Region: HTH; cl00088 387344000233 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 387344000234 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 387344000235 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 387344000236 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 387344000237 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; cl01051 387344000238 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 387344000239 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 387344000240 active site 387344000241 catalytic tetrad [active] 387344000242 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 387344000243 Major Facilitator Superfamily; Region: MFS_1; pfam07690 387344000244 putative substrate translocation pore; other site 387344000245 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 387344000246 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 387344000247 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 387344000248 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 387344000249 dimer interface [polypeptide binding]; other site 387344000250 FMN binding site [chemical binding]; other site 387344000251 NADPH bind site [chemical binding]; other site 387344000252 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 387344000253 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 facilitated...; Region: ABCF_EF-3; cd03221 387344000254 ABC transporter; Region: ABC_tran_2; pfam12848 387344000255 ABC transporter F family; Provisional; Region: PLN03073 387344000256 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 387344000257 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 facilitated...; Region: ABCF_EF-3; cd03221 387344000258 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 387344000259 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 387344000260 putative substrate translocation pore; other site 387344000261 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 387344000262 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 387344000263 NADP binding site [chemical binding]; other site 387344000264 homodimer interface [polypeptide binding]; other site 387344000265 active site 387344000266 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 387344000267 DNA binding site [nucleotide binding] 387344000268 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 387344000269 domain linker motif; other site 387344000270 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 387344000271 putative dimerization interface [polypeptide binding]; other site 387344000272 putative ligand binding site [chemical binding]; other site 387344000273 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 387344000274 Domain of unknown function DUF21; Region: DUF21; pfam01595 387344000275 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 387344000276 Transporter associated domain; Region: CorC_HlyC; cl08393 387344000277 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 387344000278 putative dimer interface [polypeptide binding]; other site 387344000279 inner membrane transporter YjeM; Provisional; Region: PRK15238 387344000280 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 387344000281 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 387344000282 active site 387344000283 catalytic tetrad [active] 387344000284 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 387344000285 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 387344000286 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387344000287 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 387344000288 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 387344000289 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 387344000290 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 387344000291 putative active site [active] 387344000292 catalytic site [active] 387344000293 putative metal binding site [ion binding]; other site 387344000294 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 387344000295 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 387344000296 putative catalytic cysteine [active] 387344000297 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 387344000298 putative active site [active] 387344000299 metal binding site [ion binding]; metal-binding site 387344000300 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 387344000301 putative peptidoglycan binding site; other site 387344000302 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344000303 Helix-turn-helix domains; Region: HTH; cl00088 387344000304 Integrase core domain; Region: rve; cl01316 387344000305 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 387344000306 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 387344000307 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 387344000308 MucBP domain; Region: MucBP; pfam06458 387344000309 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 387344000310 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 387344000311 putative peptidoglycan binding site; other site 387344000312 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 387344000313 Helix-turn-helix domains; Region: HTH; cl00088 387344000314 KduI/IolB family; Region: KduI; cl01508 387344000315 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 387344000316 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 387344000317 substrate binding site [chemical binding]; other site 387344000318 ATP binding site [chemical binding]; other site 387344000319 Acetokinase family; Region: Acetate_kinase; cl01029 387344000320 propionate/acetate kinase; Provisional; Region: PRK12379 387344000321 3D domain; Region: 3D; cl01439 387344000322 ABC-2 type transporter; Region: ABC2_membrane; cl11417 387344000323 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 387344000324 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 387344000325 Walker A/P-loop; other site 387344000326 ATP binding site [chemical binding]; other site 387344000327 Q-loop/lid; other site 387344000328 ABC transporter signature motif; other site 387344000329 Walker B; other site 387344000330 D-loop; other site 387344000331 H-loop/switch region; other site 387344000332 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 387344000333 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 387344000334 MatE; Region: MatE; cl10513 387344000335 MatE; Region: MatE; cl10513 387344000336 Glucuronate isomerase; Region: UxaC; cl00829 387344000337 MFS/sugar transport protein; Region: MFS_2; pfam13347 387344000338 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 387344000339 alpha-glucosidase; Provisional; Region: PRK10426 387344000340 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 387344000341 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 387344000342 putative active site [active] 387344000343 putative catalytic site [active] 387344000344 beta-D-glucuronidase; Provisional; Region: PRK10150 387344000345 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 387344000346 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 387344000347 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 387344000348 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 387344000349 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 387344000350 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 387344000351 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 387344000352 active site 387344000353 catalytic residues [active] 387344000354 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 387344000355 catalytic core [active] 387344000356 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 387344000357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344000358 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 387344000359 gluconate kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 387344000360 N- and C-terminal domain interface [polypeptide binding]; other site 387344000361 putative active site [active] 387344000362 catalytic site [active] 387344000363 metal binding site [ion binding]; metal-binding site 387344000364 carbohydrate binding site [chemical binding]; other site 387344000365 ATP binding site [chemical binding]; other site 387344000366 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 387344000367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344000368 Transcriptional regulators [Transcription]; Region: GntR; COG1802 387344000369 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 387344000370 DNA-binding site [nucleotide binding]; DNA binding site 387344000371 FCD domain; Region: FCD; cl11656 387344000372 mannonate dehydratase; Provisional; Region: PRK03906 387344000373 mannonate dehydratase; Region: uxuA; TIGR00695 387344000374 Transcriptional regulators [Transcription]; Region: PurR; COG1609 387344000375 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 387344000376 DNA binding site [nucleotide binding] 387344000377 domain linker motif; other site 387344000378 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 387344000379 ligand binding site [chemical binding]; other site 387344000380 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 387344000381 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 387344000382 Glucuronate isomerase; Region: UxaC; cl00829 387344000383 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344000384 Helix-turn-helix domains; Region: HTH; cl00088 387344000385 Integrase core domain; Region: rve; cl01316 387344000386 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 387344000387 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 387344000388 Major Facilitator Superfamily; Region: MFS_1; pfam07690 387344000389 putative substrate translocation pore; other site 387344000390 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 387344000391 Protein of unknown function (DUF3278); Region: DUF3278; pfam11683 387344000392 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 387344000393 putative deacylase active site [active] 387344000394 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 387344000395 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 387344000396 DNA-binding site [nucleotide binding]; DNA binding site 387344000397 UTRA domain; Region: UTRA; cl01230 387344000398 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 387344000399 active site 387344000400 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 387344000401 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 387344000402 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 387344000403 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 387344000404 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 387344000405 active site 387344000406 phosphorylation site [posttranslational modification] 387344000407 intermolecular recognition site; other site 387344000408 dimerization interface [polypeptide binding]; other site 387344000409 LytTr DNA-binding domain; Region: LytTR; cl04498 387344000410 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 387344000411 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 387344000412 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344000413 short chain dehydrogenase; Validated; Region: PRK07069 387344000414 NAD(P) binding site [chemical binding]; other site 387344000415 active site 387344000416 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 387344000417 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 and...; Region: PseudoU_synth_RluCD_like; cd02869 387344000418 active site 387344000419 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 387344000420 Ligand Binding Site [chemical binding]; other site 387344000421 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 387344000422 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 387344000423 peptide binding site [polypeptide binding]; other site 387344000424 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 387344000425 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 387344000426 dimer interface [polypeptide binding]; other site 387344000427 conserved gate region; other site 387344000428 putative PBP binding loops; other site 387344000429 ABC-ATPase subunit interface; other site 387344000430 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 387344000431 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 387344000432 dimer interface [polypeptide binding]; other site 387344000433 conserved gate region; other site 387344000434 putative PBP binding loops; other site 387344000435 ABC-ATPase subunit interface; other site 387344000436 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 387344000437 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 387344000438 Walker A/P-loop; other site 387344000439 ATP binding site [chemical binding]; other site 387344000440 Q-loop/lid; other site 387344000441 ABC transporter signature motif; other site 387344000442 Walker B; other site 387344000443 D-loop; other site 387344000444 H-loop/switch region; other site 387344000445 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 387344000446 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 387344000447 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 387344000448 Walker A/P-loop; other site 387344000449 ATP binding site [chemical binding]; other site 387344000450 Q-loop/lid; other site 387344000451 ABC transporter signature motif; other site 387344000452 Walker B; other site 387344000453 D-loop; other site 387344000454 H-loop/switch region; other site 387344000455 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 387344000456 Predicted transcriptional regulator [Transcription]; Region: COG1959 387344000457 Helix-turn-helix domains; Region: HTH; cl00088 387344000458 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 387344000459 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 387344000460 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 387344000461 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 387344000462 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 387344000463 N- and C-terminal domain interface [polypeptide binding]; other site 387344000464 D-xylulose kinase; Region: XylB; TIGR01312 387344000465 active site 387344000466 catalytic site [active] 387344000467 metal binding site [ion binding]; metal-binding site 387344000468 xylulose binding site [chemical binding]; other site 387344000469 putative ATP binding site [chemical binding]; other site 387344000470 homodimer interface [polypeptide binding]; other site 387344000471 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 387344000472 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 387344000473 acetoin reductase; Validated; Region: PRK08643 387344000474 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 387344000475 NAD binding site [chemical binding]; other site 387344000476 homotetramer interface [polypeptide binding]; other site 387344000477 homodimer interface [polypeptide binding]; other site 387344000478 active site 387344000479 substrate binding site [chemical binding]; other site 387344000480 Protein of unknown function (DUF419); Region: DUF419; cl15265 387344000481 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 387344000482 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 387344000483 Ligand Binding Site [chemical binding]; other site 387344000484 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 387344000485 substrate binding site [chemical binding]; other site 387344000486 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 387344000487 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 387344000488 metal binding site [ion binding]; metal-binding site 387344000489 dimer interface [polypeptide binding]; other site 387344000490 Ion transport protein; Region: Ion_trans; pfam00520 387344000491 Ion channel; Region: Ion_trans_2; cl11596 387344000492 Transposase; Region: DDE_Tnp_ISL3; pfam01610 387344000493 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 387344000494 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 387344000495 active site 387344000496 catalytic tetrad [active] 387344000497 Predicted acetyltransferase [General function prediction only]; Region: COG3153 387344000498 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 387344000499 Coenzyme A binding pocket [chemical binding]; other site 387344000500 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 387344000501 Membrane transport protein; Region: Mem_trans; cl09117 387344000502 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 387344000503 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344000504 sensory histidine kinase DcuS; Provisional; Region: PRK11086 387344000505 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 387344000506 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 387344000507 ATP binding site [chemical binding]; other site 387344000508 Mg2+ binding site [ion binding]; other site 387344000509 G-X-G motif; other site 387344000510 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 387344000511 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 387344000512 active site 387344000513 phosphorylation site [posttranslational modification] 387344000514 intermolecular recognition site; other site 387344000515 dimerization interface [polypeptide binding]; other site 387344000516 Helix-turn-helix domains; Region: HTH; cl00088 387344000517 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 387344000518 Helix-turn-helix domains; Region: HTH; cl00088 387344000519 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 387344000520 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 387344000521 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 387344000522 Predicted membrane protein [Function unknown]; Region: COG4640 387344000523 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 387344000524 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 387344000525 nudix motif; other site 387344000526 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; cl01382 387344000527 Helix-turn-helix domains; Region: HTH; cl00088 387344000528 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 387344000529 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 387344000530 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 387344000531 NADP binding site [chemical binding]; other site 387344000532 putative substrate binding site [chemical binding]; other site 387344000533 active site 387344000534 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 387344000535 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 387344000536 Helix-turn-helix domains; Region: HTH; cl00088 387344000537 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 387344000538 Cadmium resistance transporter; Region: Cad; cl04177 387344000539 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 387344000540 Helix-turn-helix domains; Region: HTH; cl00088 387344000541 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 387344000542 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 387344000543 Ligand Binding Site [chemical binding]; other site 387344000544 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344000545 Helix-turn-helix domains; Region: HTH; cl00088 387344000546 Integrase core domain; Region: rve; cl01316 387344000547 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 387344000548 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 387344000549 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 387344000550 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 guanine...; Region: IMPDH; cd00381 387344000551 active site 387344000552 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 387344000553 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 387344000554 GDP-binding site [chemical binding]; other site 387344000555 ACT binding site; other site 387344000556 IMP binding site; other site 387344000557 adenylosuccinate lyase; Provisional; Region: PRK07492 387344000558 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 387344000559 tetramer interface [polypeptide binding]; other site 387344000560 active site 387344000561 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 387344000562 Helix-turn-helix domains; Region: HTH; cl00088 387344000563 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 387344000564 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 387344000565 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 387344000566 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 387344000567 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 387344000568 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 387344000569 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 387344000570 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 387344000571 peptidase domain interface [polypeptide binding]; other site 387344000572 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 387344000573 active site 387344000574 catalytic triad [active] 387344000575 calcium binding site [ion binding]; other site 387344000576 Predicted membrane protein [Function unknown]; Region: COG2364 387344000577 Peptidase C26; Region: Peptidase_C26; pfam07722 387344000578 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 387344000579 catalytic triad [active] 387344000580 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 387344000581 endonuclease III; Region: ENDO3c; smart00478 387344000582 minor groove reading motif; other site 387344000583 helix-hairpin-helix signature motif; other site 387344000584 substrate binding pocket [chemical binding]; other site 387344000585 active site 387344000586 glycerol kinase; Provisional; Region: glpK; PRK00047 387344000587 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 387344000588 N- and C-terminal domain interface [polypeptide binding]; other site 387344000589 active site 387344000590 MgATP binding site [chemical binding]; other site 387344000591 catalytic site [active] 387344000592 metal binding site [ion binding]; metal-binding site 387344000593 glycerol binding site [chemical binding]; other site 387344000594 homotetramer interface [polypeptide binding]; other site 387344000595 homodimer interface [polypeptide binding]; other site 387344000596 FBP binding site [chemical binding]; other site 387344000597 protein IIAGlc interface [polypeptide binding]; other site 387344000598 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 387344000599 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 387344000600 NlpC/P60 family; Region: NLPC_P60; cl11438 387344000601 SH3-like domain; Region: SH3_8; pfam13457 387344000602 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 387344000603 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 387344000604 putative active site [active] 387344000605 Isochorismatase family; Region: Isochorismatase; pfam00857 387344000606 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 387344000607 catalytic triad [active] 387344000608 conserved cis-peptide bond; other site 387344000609 Helix-turn-helix domains; Region: HTH; cl00088 387344000610 Protein of unknown function (DUF1700); Region: DUF1700; cl01933 387344000611 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 387344000612 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 387344000613 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 387344000614 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 387344000615 FMN binding site [chemical binding]; other site 387344000616 active site 387344000617 catalytic residues [active] 387344000618 substrate binding site [chemical binding]; other site 387344000619 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 387344000620 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 387344000621 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344000622 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 387344000623 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 387344000624 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 387344000625 putative transport protein YifK; Provisional; Region: PRK10746 387344000626 WxL domain surface cell wall-binding; Region: WxL; pfam13731 387344000627 legume lectins; Region: lectin_L-type; cl14058 387344000628 homotetramer interaction site [polypeptide binding]; other site 387344000629 carbohydrate binding site [chemical binding]; other site 387344000630 metal binding site [ion binding]; metal-binding site 387344000631 WxL domain surface cell wall-binding; Region: WxL; pfam13731 387344000632 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 387344000633 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 387344000634 metal binding site [ion binding]; metal-binding site 387344000635 dimer interface [polypeptide binding]; other site 387344000636 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 387344000637 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 387344000638 NAD binding site [chemical binding]; other site 387344000639 substrate binding site [chemical binding]; other site 387344000640 catalytic Zn binding site [ion binding]; other site 387344000641 tetramer interface [polypeptide binding]; other site 387344000642 structural Zn binding site [ion binding]; other site 387344000643 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 387344000644 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 387344000645 putative DNA binding site [nucleotide binding]; other site 387344000646 putative Zn2+ binding site [ion binding]; other site 387344000647 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 387344000648 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344000649 Walker A/P-loop; other site 387344000650 ATP binding site [chemical binding]; other site 387344000651 Q-loop/lid; other site 387344000652 ABC transporter signature motif; other site 387344000653 Walker B; other site 387344000654 D-loop; other site 387344000655 H-loop/switch region; other site 387344000656 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 387344000657 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 387344000658 ABC-ATPase subunit interface; other site 387344000659 NMT1-like family; Region: NMT1_2; cl15260 387344000660 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 387344000661 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 387344000662 substrate binding site [chemical binding]; other site 387344000663 THF binding site; other site 387344000664 zinc-binding site [ion binding]; other site 387344000665 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 387344000666 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 387344000667 Helix-turn-helix domains; Region: HTH; cl00088 387344000668 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 387344000669 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 387344000670 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 387344000671 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 387344000672 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 387344000673 motif II; other site 387344000674 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 387344000675 Peptidase family C69; Region: Peptidase_C69; pfam03577 387344000676 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 387344000677 maltose O-acetyltransferase; Provisional; Region: PRK10092 387344000678 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 387344000679 active site 387344000680 substrate binding site [chemical binding]; other site 387344000681 trimer interface [polypeptide binding]; other site 387344000682 CoA binding site [chemical binding]; other site 387344000683 Fibronectin-binding protein (FBP); Region: FBP; pfam07299 387344000684 EamA-like transporter family; Region: EamA; cl01037 387344000685 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 387344000686 EamA-like transporter family; Region: EamA; cl01037 387344000687 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 387344000688 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 387344000689 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387344000690 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 387344000691 Helix-turn-helix domains; Region: HTH; cl00088 387344000692 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 387344000693 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 387344000694 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 387344000695 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 387344000696 active site 387344000697 catalytic tetrad [active] 387344000698 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 387344000699 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 387344000700 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387344000701 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 387344000702 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 387344000703 putative active site [active] 387344000704 putative metal binding site [ion binding]; other site 387344000705 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 387344000706 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 387344000707 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 387344000708 active site 387344000709 OpgC protein; Region: OpgC_C; cl00792 387344000710 Acyltransferase family; Region: Acyl_transf_3; pfam01757 387344000711 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 387344000712 catalytic triad [active] 387344000713 oxyanion hole [active] 387344000714 catalytic triad [active] 387344000715 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344000716 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 387344000717 Catalytic site [active] 387344000718 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 387344000719 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 387344000720 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 387344000721 active site 387344000722 catalytic motif [active] 387344000723 Zn binding site [ion binding]; other site 387344000724 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 387344000725 Helix-turn-helix domains; Region: HTH; cl00088 387344000726 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 387344000727 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 387344000728 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 387344000729 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344000730 Walker A/P-loop; other site 387344000731 ATP binding site [chemical binding]; other site 387344000732 Q-loop/lid; other site 387344000733 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344000734 ABC transporter signature motif; other site 387344000735 Walker B; other site 387344000736 D-loop; other site 387344000737 H-loop/switch region; other site 387344000738 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344000739 Walker A/P-loop; other site 387344000740 ATP binding site [chemical binding]; other site 387344000741 Q-loop/lid; other site 387344000742 ABC transporter signature motif; other site 387344000743 Walker B; other site 387344000744 D-loop; other site 387344000745 H-loop/switch region; other site 387344000746 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 387344000747 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 387344000748 dimer interface [polypeptide binding]; other site 387344000749 conserved gate region; other site 387344000750 putative PBP binding loops; other site 387344000751 ABC-ATPase subunit interface; other site 387344000752 NMT1-like family; Region: NMT1_2; cl15260 387344000753 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 387344000754 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 387344000755 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 of...; Region: ABC_OpuCA_Osmoprotection; cd03295 387344000756 glycine betaine/L-proline transport ATP binding subunit; Region: proV; TIGR01186 387344000757 Walker A/P-loop; other site 387344000758 ATP binding site [chemical binding]; other site 387344000759 Q-loop/lid; other site 387344000760 ABC transporter signature motif; other site 387344000761 Walker B; other site 387344000762 D-loop; other site 387344000763 H-loop/switch region; other site 387344000764 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 387344000765 drug efflux system protein MdtG; Provisional; Region: PRK09874 387344000766 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 387344000767 putative substrate translocation pore; other site 387344000768 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 387344000769 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 387344000770 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 387344000771 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387344000772 homodimer interface [polypeptide binding]; other site 387344000773 catalytic residue [active] 387344000774 Protein of unknown function (DUF3737); Region: DUF3737; pfam12541 387344000775 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 387344000776 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 387344000777 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 387344000778 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 387344000779 Ligand binding site; other site 387344000780 Putative Catalytic site; other site 387344000781 DXD motif; other site 387344000782 PlyB is a bacteriophage endolysin that displays potent lytic activity toward Bacillus anthracis. PlyB has an N-terminal glycosyl hydrolase family 25 (GH25) catalytic domain and a C-terminal bacterial SH3-like domain, SH3b. Both domains are required for...; Region: GH25_PlyB-like; cd06523 387344000783 active site 387344000784 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 387344000785 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 387344000786 Domain of unknown function DUF20; Region: UPF0118; pfam01594 387344000787 FtsX-like permease family; Region: FtsX; cl15850 387344000788 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 387344000789 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 387344000790 Walker A/P-loop; other site 387344000791 ATP binding site [chemical binding]; other site 387344000792 Q-loop/lid; other site 387344000793 ABC transporter signature motif; other site 387344000794 Walker B; other site 387344000795 D-loop; other site 387344000796 H-loop/switch region; other site 387344000797 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 387344000798 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 387344000799 Ca binding site [ion binding]; other site 387344000800 active site 387344000801 catalytic site [active] 387344000802 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 387344000803 Helix-turn-helix domains; Region: HTH; cl00088 387344000804 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 387344000805 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 387344000806 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 387344000807 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 387344000808 PYR/PP interface [polypeptide binding]; other site 387344000809 tetramer interface [polypeptide binding]; other site 387344000810 dimer interface [polypeptide binding]; other site 387344000811 TPP binding site [chemical binding]; other site 387344000812 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 387344000813 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 387344000814 TPP-binding site [chemical binding]; other site 387344000815 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 387344000816 dimer interface [polypeptide binding]; other site 387344000817 phosphorylation site [posttranslational modification] 387344000818 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 387344000819 ATP binding site [chemical binding]; other site 387344000820 Mg2+ binding site [ion binding]; other site 387344000821 G-X-G motif; other site 387344000822 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387344000823 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 387344000824 active site 387344000825 phosphorylation site [posttranslational modification] 387344000826 intermolecular recognition site; other site 387344000827 dimerization interface [polypeptide binding]; other site 387344000828 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 387344000829 DNA binding site [nucleotide binding] 387344000830 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 387344000831 NADH(P)-binding; Region: NAD_binding_10; pfam13460 387344000832 NAD(P) binding site [chemical binding]; other site 387344000833 putative active site [active] 387344000834 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 387344000835 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344000836 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 387344000837 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 387344000838 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 387344000839 DNA binding site [nucleotide binding] 387344000840 active site 387344000841 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 387344000842 Helix-turn-helix domains; Region: HTH; cl00088 387344000843 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 387344000844 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 387344000845 NAD(P) binding site [chemical binding]; other site 387344000846 catalytic residues [active] 387344000847 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 387344000848 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 387344000849 active site 387344000850 intersubunit interface [polypeptide binding]; other site 387344000851 catalytic residue [active] 387344000852 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 387344000853 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 387344000854 substrate binding site [chemical binding]; other site 387344000855 ATP binding site [chemical binding]; other site 387344000856 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 387344000857 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 387344000858 NADP binding site [chemical binding]; other site 387344000859 homodimer interface [polypeptide binding]; other site 387344000860 active site 387344000861 Transcriptional regulator [Transcription]; Region: IclR; COG1414 387344000862 Helix-turn-helix domains; Region: HTH; cl00088 387344000863 Bacterial transcriptional regulator; Region: IclR; pfam01614 387344000864 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 387344000865 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 387344000866 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344000867 NAD(P) binding site [chemical binding]; other site 387344000868 active site 387344000869 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 387344000870 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 387344000871 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 387344000872 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 387344000873 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 387344000874 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 387344000875 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 387344000876 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 387344000877 catalytic residues [active] 387344000878 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 387344000879 putative homodimer interface [polypeptide binding]; other site 387344000880 putative homotetramer interface [polypeptide binding]; other site 387344000881 putative metal binding site [ion binding]; other site 387344000882 putative homodimer-homodimer interface [polypeptide binding]; other site 387344000883 putative allosteric switch controlling residues; other site 387344000884 CrcB-like protein; Region: CRCB; cl09114 387344000885 CrcB-like protein; Region: CRCB; cl09114 387344000886 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 387344000887 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 387344000888 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 387344000889 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 387344000890 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 387344000891 FAD binding pocket [chemical binding]; other site 387344000892 conserved FAD binding motif [chemical binding]; other site 387344000893 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 387344000894 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 387344000895 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 387344000896 Transcriptional regulator [Transcription]; Region: LysR; COG0583 387344000897 Helix-turn-helix domains; Region: HTH; cl00088 387344000898 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 387344000899 dimerization interface [polypeptide binding]; other site 387344000900 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 387344000901 Protein of unknown function (DUF1634); Region: DUF1634; cl01741 387344000902 3beta17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 3beta-17beta-HSD_like_SDR_c; cd05341 387344000903 homotetramer interface [polypeptide binding]; other site 387344000904 short chain dehydrogenase; Validated; Region: PRK07069 387344000905 NAD binding site [chemical binding]; other site 387344000906 homodimer interface [polypeptide binding]; other site 387344000907 active site 387344000908 drug efflux system protein MdtG; Provisional; Region: PRK09874 387344000909 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 387344000910 putative substrate translocation pore; other site 387344000911 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 387344000912 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 387344000913 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 387344000914 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 387344000915 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387344000916 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 387344000917 active site 387344000918 phosphorylation site [posttranslational modification] 387344000919 intermolecular recognition site; other site 387344000920 dimerization interface [polypeptide binding]; other site 387344000921 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 387344000922 DNA binding site [nucleotide binding] 387344000923 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 387344000924 dimer interface [polypeptide binding]; other site 387344000925 phosphorylation site [posttranslational modification] 387344000926 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 387344000927 ATP binding site [chemical binding]; other site 387344000928 Mg2+ binding site [ion binding]; other site 387344000929 G-X-G motif; other site 387344000930 Transcriptional regulators [Transcription]; Region: PurR; COG1609 387344000931 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 387344000932 DNA binding site [nucleotide binding] 387344000933 domain linker motif; other site 387344000934 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 387344000935 putative dimerization interface [polypeptide binding]; other site 387344000936 putative ligand binding site [chemical binding]; other site 387344000937 GPH family sucrose/H+ symporter; Region: GPH_sucrose; TIGR01301 387344000938 Major Facilitator Superfamily; Region: MFS_1; pfam07690 387344000939 maltose phosphorylase; Provisional; Region: PRK13807 387344000940 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 387344000941 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 387344000942 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 387344000943 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 387344000944 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 387344000945 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 387344000946 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387344000947 Helix-turn-helix domains; Region: HTH; cl00088 387344000948 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 387344000949 putative catalytic residues [active] 387344000950 thiol/disulfide switch; other site 387344000951 ArsC family; Region: ArsC; pfam03960 387344000952 NlpC/P60 family; Region: NLPC_P60; cl11438 387344000953 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 387344000954 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 387344000955 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 387344000956 classical (c) SDRs; Region: SDR_c; cd05233 387344000957 short chain dehydrogenase; Provisional; Region: PRK07041 387344000958 NAD(P) binding site [chemical binding]; other site 387344000959 active site 387344000960 GPH family sucrose/H+ symporter; Region: GPH_sucrose; TIGR01301 387344000961 MFS/sugar transport protein; Region: MFS_2; pfam13347 387344000962 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 387344000963 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 387344000964 inhibitor binding site; inhibition site 387344000965 active site 387344000966 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344000967 Helix-turn-helix domains; Region: HTH; cl00088 387344000968 Integrase core domain; Region: rve; cl01316 387344000969 Cupin domain; Region: Cupin_2; cl09118 387344000970 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 387344000971 Helix-turn-helix domain; Region: HTH_18; pfam12833 387344000972 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 387344000973 classical (c) SDRs; Region: SDR_c; cd05233 387344000974 NAD(P) binding site [chemical binding]; other site 387344000975 active site 387344000976 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 387344000977 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344000978 NAD(P) binding site [chemical binding]; other site 387344000979 active site 387344000980 Predicted transcriptional regulator [Transcription]; Region: COG1959 387344000981 Helix-turn-helix domains; Region: HTH; cl00088 387344000982 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 387344000983 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 387344000984 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 387344000985 Helix-turn-helix domains; Region: HTH; cl00088 387344000986 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 387344000987 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 387344000988 putative substrate translocation pore; other site 387344000989 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 387344000990 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 387344000991 active site 387344000992 catalytic tetrad [active] 387344000993 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 387344000994 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 387344000995 Walker A/P-loop; other site 387344000996 ATP binding site [chemical binding]; other site 387344000997 Q-loop/lid; other site 387344000998 ABC transporter signature motif; other site 387344000999 Walker B; other site 387344001000 D-loop; other site 387344001001 H-loop/switch region; other site 387344001002 Predicted transcriptional regulators [Transcription]; Region: COG1725 387344001003 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 387344001004 DNA-binding site [nucleotide binding]; DNA binding site 387344001005 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 387344001006 Collagen binding domain; Region: Collagen_bind; pfam05737 387344001007 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 387344001008 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 387344001009 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387344001010 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 387344001011 multicopper oxidase; Provisional; Region: PRK10965 387344001012 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 387344001013 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 387344001014 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 387344001015 dimerization interface [polypeptide binding]; other site 387344001016 putative DNA binding site [nucleotide binding]; other site 387344001017 putative Zn2+ binding site [ion binding]; other site 387344001018 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 387344001019 Cadmium resistance transporter; Region: Cad; cl04177 387344001020 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 387344001021 Transcriptional regulator [Transcription]; Region: LysR; COG0583 387344001022 Helix-turn-helix domains; Region: HTH; cl00088 387344001023 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 387344001024 dimerization interface [polypeptide binding]; other site 387344001025 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 387344001026 Major Facilitator Superfamily; Region: MFS_1; pfam07690 387344001027 putative substrate translocation pore; other site 387344001028 Cupin domain; Region: Cupin_2; cl09118 387344001029 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 387344001030 Helix-turn-helix domain; Region: HTH_18; pfam12833 387344001031 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 387344001032 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 387344001033 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344001034 Walker A/P-loop; other site 387344001035 ATP binding site [chemical binding]; other site 387344001036 ABC transporter signature motif; other site 387344001037 Walker B; other site 387344001038 D-loop; other site 387344001039 H-loop/switch region; other site 387344001040 ABC transporter; Region: ABC_tran_2; pfam12848 387344001041 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 facilitated...; Region: ABCF_EF-3; cd03221 387344001042 Protein of unknown function, DUF606; Region: DUF606; cl01273 387344001043 Protein of unknown function, DUF606; Region: DUF606; cl01273 387344001044 nuc_hydro_ TvIAG: Nucleoside hydrolases similar to the Inosine-adenosine-guanosine-preferring nucleoside hydrolase from Trypanosoma vivax. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base; Region: nuc_hydro_TvIAG; cd02647 387344001045 active site 387344001046 dimerization interface [polypeptide binding]; other site 387344001047 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 387344001048 B3/4 domain; Region: B3_4; cl11458 387344001049 Protein of unknown function (DUF975); Region: DUF975; cl10504 387344001050 Predicted transcriptional regulators [Transcription]; Region: COG1725 387344001051 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 387344001052 DNA-binding site [nucleotide binding]; DNA binding site 387344001053 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 387344001054 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 387344001055 Walker A/P-loop; other site 387344001056 ATP binding site [chemical binding]; other site 387344001057 Q-loop/lid; other site 387344001058 ABC transporter signature motif; other site 387344001059 Walker B; other site 387344001060 D-loop; other site 387344001061 H-loop/switch region; other site 387344001062 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 387344001063 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 387344001064 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 387344001065 Helix-turn-helix domains; Region: HTH; cl00088 387344001066 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 387344001067 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 387344001068 Glycerate kinase family; Region: Gly_kinase; cl00841 387344001069 Predicted membrane protein [Function unknown]; Region: COG3428 387344001070 Bacterial PH domain; Region: DUF304; cl01348 387344001071 Bacterial PH domain; Region: DUF304; cl01348 387344001072 Bacterial PH domain; Region: DUF304; cl01348 387344001073 Bacterial PH domain; Region: DUF304; cl01348 387344001074 TIR domain; Region: TIR_2; cl15770 387344001075 Sodium:solute symporter family; Region: SSF; cl00456 387344001076 Helix-turn-helix domains; Region: HTH; cl00088 387344001077 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 387344001078 Helix-turn-helix domains; Region: HTH; cl00088 387344001079 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 387344001080 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 387344001081 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 387344001082 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 387344001083 active site 387344001084 HIGH motif; other site 387344001085 dimer interface [polypeptide binding]; other site 387344001086 KMSKS motif; other site 387344001087 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 387344001088 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 387344001089 nudix motif; other site 387344001090 Protein of unknown function (DUF421); Region: DUF421; cl00990 387344001091 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 387344001092 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 387344001093 non-specific DNA binding site [nucleotide binding]; other site 387344001094 salt bridge; other site 387344001095 sequence-specific DNA binding site [nucleotide binding]; other site 387344001096 H+ Antiporter protein; Region: 2A0121; TIGR00900 387344001097 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 387344001098 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 387344001099 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 387344001100 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 387344001101 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 387344001102 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 387344001103 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 387344001104 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 387344001105 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 387344001106 substrate binding site [chemical binding]; other site 387344001107 ATP binding site [chemical binding]; other site 387344001108 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 387344001109 active site 387344001110 dimer interface [polypeptide binding]; other site 387344001111 magnesium binding site [ion binding]; other site 387344001112 Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with...; Region: SIS_PHI; cd05005 387344001113 Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]; Region: GutQ; COG0794 387344001114 tetramer interface [polypeptide binding]; other site 387344001115 active site 387344001116 Transcriptional regulators [Transcription]; Region: PurR; COG1609 387344001117 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 387344001118 DNA binding site [nucleotide binding] 387344001119 domain linker motif; other site 387344001120 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 387344001121 putative dimerization interface [polypeptide binding]; other site 387344001122 putative ligand binding site [chemical binding]; other site 387344001123 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 387344001124 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344001125 Family description; Region: UvrD_C_2; cl15862 387344001126 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 387344001127 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 387344001128 active site 387344001129 HIGH motif; other site 387344001130 dimer interface [polypeptide binding]; other site 387344001131 KMSKS motif; other site 387344001132 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 387344001133 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 387344001134 homodimer interface [polypeptide binding]; other site 387344001135 catalytic residues [active] 387344001136 NAD binding site [chemical binding]; other site 387344001137 substrate binding pocket [chemical binding]; other site 387344001138 flexible flap; other site 387344001139 NAD-dependent deacetylase; Provisional; Region: PRK00481 387344001140 SIR2H: Uncharacterized prokaryotic Sir2 homologs from several gram positive bacterial species and Fusobacteria; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone...; Region: SIR2H; cd01411 387344001141 NAD+ binding site [chemical binding]; other site 387344001142 substrate binding site [chemical binding]; other site 387344001143 putative Zn binding site [ion binding]; other site 387344001144 Protein of unknown function DUF72; Region: DUF72; cl00777 387344001145 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 387344001146 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 387344001147 active site 387344001148 HIGH motif; other site 387344001149 KMSKS motif; other site 387344001150 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 387344001151 tRNA binding surface [nucleotide binding]; other site 387344001152 anticodon binding site; other site 387344001153 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 387344001154 dimer interface [polypeptide binding]; other site 387344001155 putative tRNA-binding site [nucleotide binding]; other site 387344001156 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 387344001157 active site 387344001158 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 387344001159 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 387344001160 putative active site [active] 387344001161 putative metal binding site [ion binding]; other site 387344001162 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 387344001163 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344001164 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 387344001165 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 387344001166 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 387344001167 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 387344001168 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 387344001169 putative uracil binding site [chemical binding]; other site 387344001170 putative active site [active] 387344001171 putative alpha-glucosidase; Provisional; Region: PRK10658 387344001172 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 387344001173 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 387344001174 active site 387344001175 homotrimer interface [polypeptide binding]; other site 387344001176 catalytic site [active] 387344001177 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 387344001178 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 387344001179 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 387344001180 Helix-turn-helix domains; Region: HTH; cl00088 387344001181 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 387344001182 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 387344001183 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 387344001184 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 387344001185 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 387344001186 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 387344001187 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 387344001188 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 387344001189 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 387344001190 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 387344001191 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 387344001192 intersubunit interface [polypeptide binding]; other site 387344001193 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 387344001194 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 387344001195 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 387344001196 pur operon repressor; Provisional; Region: PRK09213 387344001197 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 387344001198 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 387344001199 active site 387344001200 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 387344001201 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 387344001202 Substrate binding site; other site 387344001203 Mg++ binding site; other site 387344001204 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 387344001205 active site 387344001206 substrate binding site [chemical binding]; other site 387344001207 CoA binding site [chemical binding]; other site 387344001208 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 387344001209 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 387344001210 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 387344001211 active site 387344001212 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 387344001213 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 387344001214 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 387344001215 DNA binding residues [nucleotide binding] 387344001216 dimer interface [polypeptide binding]; other site 387344001217 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 387344001218 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 387344001219 DNA-binding site [nucleotide binding]; DNA binding site 387344001220 UTRA domain; Region: UTRA; cl01230 387344001221 putative phosphoketolase; Provisional; Region: PRK05261 387344001222 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 387344001223 TPP-binding site [chemical binding]; other site 387344001224 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 387344001225 XFP C-terminal domain; Region: XFP_C; pfam09363 387344001226 sugar phosphate phosphatase; Provisional; Region: PRK10513 387344001227 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 387344001228 active site 387344001229 motif I; other site 387344001230 motif II; other site 387344001231 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387344001232 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 387344001233 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 387344001234 Zn2+ binding site [ion binding]; other site 387344001235 Mg2+ binding site [ion binding]; other site 387344001236 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 387344001237 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 387344001238 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 387344001239 CTP synthetase; Validated; Region: pyrG; PRK05380 387344001240 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 387344001241 Catalytic site [active] 387344001242 active site 387344001243 UTP binding site [chemical binding]; other site 387344001244 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 387344001245 active site 387344001246 putative oxyanion hole; other site 387344001247 catalytic triad [active] 387344001248 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 387344001249 Helix-turn-helix domains; Region: HTH; cl00088 387344001250 acetolactate synthase; Reviewed; Region: PRK08617 387344001251 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 387344001252 PYR/PP interface [polypeptide binding]; other site 387344001253 dimer interface [polypeptide binding]; other site 387344001254 TPP binding site [chemical binding]; other site 387344001255 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 387344001256 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 387344001257 TPP-binding site [chemical binding]; other site 387344001258 dimer interface [polypeptide binding]; other site 387344001259 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 387344001260 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 387344001261 MucBP domain; Region: MucBP; pfam06458 387344001262 MucBP domain; Region: MucBP; pfam06458 387344001263 MucBP domain; Region: MucBP; pfam06458 387344001264 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 387344001265 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 387344001266 hinge; other site 387344001267 active site 387344001268 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 387344001269 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 387344001270 active site 387344001271 catalytic site [active] 387344001272 Low molecular weight phosphatase family; Region: LMWPc; cd00115 387344001273 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 387344001274 active site 387344001275 LemA family; Region: LemA; cl00742 387344001276 Peptidase family M48; Region: Peptidase_M48; cl12018 387344001277 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 387344001278 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 387344001279 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 387344001280 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 387344001281 helicase 45; Provisional; Region: PTZ00424 387344001282 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 387344001283 ATP binding site [chemical binding]; other site 387344001284 Mg++ binding site [ion binding]; other site 387344001285 motif III; other site 387344001286 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 387344001287 nucleotide binding region [chemical binding]; other site 387344001288 ATP-binding site [chemical binding]; other site 387344001289 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 387344001290 alanine racemase; Reviewed; Region: alr; PRK00053 387344001291 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 387344001292 active site 387344001293 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 387344001294 dimer interface [polypeptide binding]; other site 387344001295 substrate binding site [chemical binding]; other site 387344001296 catalytic residues [active] 387344001297 PemK-like protein; Region: PemK; cl00995 387344001298 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 387344001299 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 387344001300 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 387344001301 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 387344001302 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 387344001303 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 387344001304 tetramer (dimer of dimers) interface [polypeptide binding]; other site 387344001305 NAD binding site [chemical binding]; other site 387344001306 dimer interface [polypeptide binding]; other site 387344001307 substrate binding site [chemical binding]; other site 387344001308 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 387344001309 putative active site [active] 387344001310 catalytic residue [active] 387344001311 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 387344001312 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 387344001313 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 387344001314 ATP binding site [chemical binding]; other site 387344001315 putative Mg++ binding site [ion binding]; other site 387344001316 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 387344001317 nucleotide binding region [chemical binding]; other site 387344001318 ATP-binding site [chemical binding]; other site 387344001319 TRCF domain; Region: TRCF; cl04088 387344001320 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 387344001321 MatE; Region: MatE; cl10513 387344001322 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 387344001323 Septum formation initiator; Region: DivIC; cl11433 387344001324 hypothetical protein; Provisional; Region: PRK08582 387344001325 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 387344001326 RNA binding site [nucleotide binding]; other site 387344001327 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 387344001328 Ligand Binding Site [chemical binding]; other site 387344001329 B3/4 domain; Region: B3_4; cl11458 387344001330 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 387344001331 active site 387344001332 FtsH Extracellular; Region: FtsH_ext; pfam06480 387344001333 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 387344001334 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 387344001335 Walker A motif; other site 387344001336 ATP binding site [chemical binding]; other site 387344001337 Walker B motif; other site 387344001338 arginine finger; other site 387344001339 Peptidase family M41; Region: Peptidase_M41; pfam01434 387344001340 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 387344001341 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 387344001342 dimerization interface [polypeptide binding]; other site 387344001343 domain crossover interface; other site 387344001344 redox-dependent activation switch; other site 387344001345 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 387344001346 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 387344001347 FMN binding site [chemical binding]; other site 387344001348 active site 387344001349 catalytic residues [active] 387344001350 substrate binding site [chemical binding]; other site 387344001351 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 387344001352 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 387344001353 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 387344001354 putative substrate translocation pore; other site 387344001355 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 387344001356 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 387344001357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344001358 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 387344001359 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 387344001360 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 387344001361 active site 387344001362 dimer interface [polypeptide binding]; other site 387344001363 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 387344001364 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 387344001365 DNA-binding site [nucleotide binding]; DNA binding site 387344001366 UTRA domain; Region: UTRA; cl01230 387344001367 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 387344001368 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 387344001369 Coenzyme A binding pocket [chemical binding]; other site 387344001370 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 387344001371 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 387344001372 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 387344001373 active site 387344001374 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 387344001375 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 387344001376 homodimer interface [polypeptide binding]; other site 387344001377 NAD binding pocket [chemical binding]; other site 387344001378 ATP binding pocket [chemical binding]; other site 387344001379 Mg binding site [ion binding]; other site 387344001380 active-site loop [active] 387344001381 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 387344001382 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 387344001383 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 387344001384 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 387344001385 RNA binding site [nucleotide binding]; other site 387344001386 hypothetical protein; Provisional; Region: PRK04351 387344001387 SprT homologues; Region: SprT; cl01182 387344001388 homoserine kinase; Provisional; Region: PRK01212 387344001389 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 387344001390 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 387344001391 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 387344001392 Predicted membrane protein [Function unknown]; Region: COG2364 387344001393 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 387344001394 Helix-turn-helix domains; Region: HTH; cl00088 387344001395 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 387344001396 MatE; Region: MatE; cl10513 387344001397 MatE; Region: MatE; cl10513 387344001398 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 387344001399 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 387344001400 active site 387344001401 motif I; other site 387344001402 motif II; other site 387344001403 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 387344001404 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 387344001405 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 387344001406 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 387344001407 metal binding site [ion binding]; metal-binding site 387344001408 active site 387344001409 I-site; other site 387344001410 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344001411 Helix-turn-helix domains; Region: HTH; cl00088 387344001412 Integrase core domain; Region: rve; cl01316 387344001413 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 387344001414 Helix-turn-helix domains; Region: HTH; cl00088 387344001415 Predicted membrane protein [Function unknown]; Region: COG1511 387344001416 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 387344001417 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 387344001418 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 387344001419 ABC-2 type transporter; Region: ABC2_membrane; cl11417 387344001420 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 387344001421 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 387344001422 metal binding site [ion binding]; metal-binding site 387344001423 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 387344001424 Membrane transport protein; Region: Mem_trans; cl09117 387344001425 EamA-like transporter family; Region: EamA; cl01037 387344001426 EamA-like transporter family; Region: EamA; cl01037 387344001427 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 387344001428 catalytic core [active] 387344001429 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 387344001430 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 387344001431 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 387344001432 trimer interface [polypeptide binding]; other site 387344001433 active site 387344001434 G bulge; other site 387344001435 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 387344001436 tetramer (dimer of dimers) interface [polypeptide binding]; other site 387344001437 active site 387344001438 dimer interface [polypeptide binding]; other site 387344001439 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 387344001440 trimer interface [polypeptide binding]; other site 387344001441 active site 387344001442 DNA repair protein RadA; Provisional; Region: PRK11823 387344001443 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 387344001444 Walker A motif/ATP binding site; other site 387344001445 ATP binding site [chemical binding]; other site 387344001446 Walker B motif; other site 387344001447 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 387344001448 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 387344001449 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 387344001450 putative active site [active] 387344001451 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 387344001452 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 387344001453 active site 387344001454 HIGH motif; other site 387344001455 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 387344001456 active site 387344001457 KMSKS motif; other site 387344001458 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 387344001459 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 387344001460 active site 387344001461 HIGH motif; other site 387344001462 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 387344001463 KMSKS motif; other site 387344001464 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 387344001465 tRNA binding surface [nucleotide binding]; other site 387344001466 anticodon binding site; other site 387344001467 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cl00258 387344001468 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 387344001469 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 387344001470 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 387344001471 RNA polymerase factor sigma-70; Validated; Region: PRK08295 387344001472 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 387344001473 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 387344001474 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 387344001475 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 387344001476 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 387344001477 putative homodimer interface [polypeptide binding]; other site 387344001478 KOW motif; Region: KOW; cl00354 387344001479 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 387344001480 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 387344001481 23S rRNA interface [nucleotide binding]; other site 387344001482 L7/L12 interface [polypeptide binding]; other site 387344001483 putative thiostrepton binding site; other site 387344001484 L25 interface [polypeptide binding]; other site 387344001485 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 387344001486 mRNA/rRNA interface [nucleotide binding]; other site 387344001487 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 387344001488 23S rRNA interface [nucleotide binding]; other site 387344001489 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 387344001490 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 387344001491 peripheral dimer interface [polypeptide binding]; other site 387344001492 core dimer interface [polypeptide binding]; other site 387344001493 L10 interface [polypeptide binding]; other site 387344001494 L11 interface [polypeptide binding]; other site 387344001495 putative EF-Tu interaction site [polypeptide binding]; other site 387344001496 putative EF-G interaction site [polypeptide binding]; other site 387344001497 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 387344001498 Uncharacterized conserved protein [Function unknown]; Region: COG2898 387344001499 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 387344001500 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 387344001501 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08293 387344001502 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344001503 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 387344001504 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 387344001505 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 387344001506 dimer interface [polypeptide binding]; other site 387344001507 putative radical transfer pathway; other site 387344001508 diiron center [ion binding]; other site 387344001509 tyrosyl radical; other site 387344001510 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 387344001511 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 387344001512 Class I ribonucleotide reductase; Region: RNR_I; cd01679 387344001513 active site 387344001514 dimer interface [polypeptide binding]; other site 387344001515 catalytic residues [active] 387344001516 effector binding site; other site 387344001517 R2 peptide binding site; other site 387344001518 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 387344001519 catalytic residues [active] 387344001520 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 387344001521 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 387344001522 S-adenosylmethionine binding site [chemical binding]; other site 387344001523 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 387344001524 nucleoside/Zn binding site; other site 387344001525 dimer interface [polypeptide binding]; other site 387344001526 catalytic motif [active] 387344001527 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 387344001528 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 387344001529 Walker A motif; other site 387344001530 ATP binding site [chemical binding]; other site 387344001531 Walker B motif; other site 387344001532 arginine finger; other site 387344001533 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 387344001534 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 387344001535 recombination protein RecR; Reviewed; Region: recR; PRK00076 387344001536 RecR protein; Region: RecR; pfam02132 387344001537 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 387344001538 putative active site [active] 387344001539 putative metal-binding site [ion binding]; other site 387344001540 tetramer interface [polypeptide binding]; other site 387344001541 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 387344001542 thymidylate kinase; Validated; Region: tmk; PRK00698 387344001543 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 387344001544 TMP-binding site; other site 387344001545 ATP-binding site [chemical binding]; other site 387344001546 Nitrogen regulatory protein P-II; Region: P-II; cl00412 387344001547 DNA polymerase III subunit delta'; Validated; Region: PRK08058 387344001548 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344001549 Protein of unknown function (DUF972); Region: DUF972; pfam06156 387344001550 Predicted methyltransferases [General function prediction only]; Region: COG0313 387344001551 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 387344001552 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 387344001553 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 387344001554 active site 387344001555 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 387344001556 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 387344001557 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 387344001558 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 387344001559 Coenzyme A binding pocket [chemical binding]; other site 387344001560 UGMP family protein; Validated; Region: PRK09604 387344001561 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 387344001562 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 387344001563 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 387344001564 putative substrate translocation pore; other site 387344001565 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 387344001566 dimerization interface [polypeptide binding]; other site 387344001567 putative DNA binding site [nucleotide binding]; other site 387344001568 putative Zn2+ binding site [ion binding]; other site 387344001569 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 387344001570 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 facilitated...; Region: ABCF_EF-3; cd03221 387344001571 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 facilitated...; Region: ABCF_EF-3; cd03221 387344001572 ABC transporter; Region: ABC_tran_2; pfam12848 387344001573 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 facilitated...; Region: ABCF_EF-3; cd03221 387344001574 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 387344001575 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 387344001576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344001577 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 387344001578 oligomerisation interface [polypeptide binding]; other site 387344001579 mobile loop; other site 387344001580 roof hairpin; other site 387344001581 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 387344001582 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 387344001583 ring oligomerisation interface [polypeptide binding]; other site 387344001584 ATP/Mg binding site [chemical binding]; other site 387344001585 stacking interactions; other site 387344001586 hinge regions; other site 387344001587 Amino acid permease; Region: AA_permease_2; pfam13520 387344001588 LrgB-like family; Region: LrgB; cl00596 387344001589 LrgA family; Region: LrgA; cl00608 387344001590 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 387344001591 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 387344001592 Mg++ binding site [ion binding]; other site 387344001593 putative catalytic motif [active] 387344001594 substrate binding site [chemical binding]; other site 387344001595 Uncharacterized conserved protein [Function unknown]; Region: COG1739 387344001596 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 387344001597 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 387344001598 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 387344001599 ATP binding site [chemical binding]; other site 387344001600 putative Mg++ binding site [ion binding]; other site 387344001601 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 387344001602 nucleotide binding region [chemical binding]; other site 387344001603 ATP-binding site [chemical binding]; other site 387344001604 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 387344001605 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 387344001606 active site 387344001607 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 387344001608 30S subunit binding site; other site 387344001609 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12906 387344001610 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344001611 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 387344001612 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 387344001613 nucleotide binding region [chemical binding]; other site 387344001614 ATP-binding site [chemical binding]; other site 387344001615 peptide chain release factor 2; Validated; Region: prfB; PRK00578 387344001616 RF-1 domain; Region: RF-1; cl02875 387344001617 RF-1 domain; Region: RF-1; cl02875 387344001618 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 387344001619 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387344001620 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 387344001621 active site 387344001622 phosphorylation site [posttranslational modification] 387344001623 intermolecular recognition site; other site 387344001624 dimerization interface [polypeptide binding]; other site 387344001625 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 387344001626 DNA binding site [nucleotide binding] 387344001627 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 387344001628 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 387344001629 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 387344001630 dimer interface [polypeptide binding]; other site 387344001631 phosphorylation site [posttranslational modification] 387344001632 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 387344001633 ATP binding site [chemical binding]; other site 387344001634 Mg2+ binding site [ion binding]; other site 387344001635 G-X-G motif; other site 387344001636 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 387344001637 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 387344001638 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 387344001639 dimer interface [polypeptide binding]; other site 387344001640 conserved gate region; other site 387344001641 putative PBP binding loops; other site 387344001642 ABC-ATPase subunit interface; other site 387344001643 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 387344001644 dimer interface [polypeptide binding]; other site 387344001645 conserved gate region; other site 387344001646 putative PBP binding loops; other site 387344001647 ABC-ATPase subunit interface; other site 387344001648 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 387344001649 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 387344001650 Walker A/P-loop; other site 387344001651 ATP binding site [chemical binding]; other site 387344001652 Q-loop/lid; other site 387344001653 ABC transporter signature motif; other site 387344001654 Walker B; other site 387344001655 D-loop; other site 387344001656 H-loop/switch region; other site 387344001657 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 387344001658 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 387344001659 Walker A/P-loop; other site 387344001660 ATP binding site [chemical binding]; other site 387344001661 Q-loop/lid; other site 387344001662 ABC transporter signature motif; other site 387344001663 Walker B; other site 387344001664 D-loop; other site 387344001665 H-loop/switch region; other site 387344001666 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 387344001667 PhoU domain; Region: PhoU; pfam01895 387344001668 PhoU domain; Region: PhoU; pfam01895 387344001669 PspC domain; Region: PspC; cl00864 387344001670 Membrane protein of unknown function; Region: DUF360; cl00850 387344001671 DRTGG domain; Region: DRTGG; cl12147 387344001672 HPr kinase/phosphorylase; Provisional; Region: PRK05428 387344001673 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 387344001674 Hpr binding site; other site 387344001675 active site 387344001676 homohexamer subunit interaction site [polypeptide binding]; other site 387344001677 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 387344001678 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 387344001679 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344001680 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 387344001681 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 387344001682 active site 387344001683 tetramer interface; other site 387344001684 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 387344001685 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344001686 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 387344001687 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 387344001688 excinuclease ABC subunit B; Provisional; Region: PRK05298 387344001689 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 387344001690 ATP binding site [chemical binding]; other site 387344001691 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 387344001692 nucleotide binding region [chemical binding]; other site 387344001693 ATP-binding site [chemical binding]; other site 387344001694 Ultra-violet resistance protein B; Region: UvrB; pfam12344 387344001695 UvrB/uvrC motif; Region: UVR; pfam02151 387344001696 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 387344001697 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 387344001698 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 387344001699 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 387344001700 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 387344001701 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 387344001702 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 387344001703 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 387344001704 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 387344001705 phosphate binding site [ion binding]; other site 387344001706 putative substrate binding pocket [chemical binding]; other site 387344001707 dimer interface [polypeptide binding]; other site 387344001708 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 387344001709 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 387344001710 Clp protease; Region: CLP_protease; pfam00574 387344001711 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 387344001712 oligomer interface [polypeptide binding]; other site 387344001713 active site residues [active] 387344001714 LytTr DNA-binding domain; Region: LytTR; cl04498 387344001715 Predicted membrane protein [Function unknown]; Region: COG4684 387344001716 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 387344001717 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 387344001718 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 387344001719 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344001720 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 387344001721 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 387344001722 Phosphoglycerate kinase; Region: PGK; pfam00162 387344001723 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 387344001724 substrate binding site [chemical binding]; other site 387344001725 hinge regions; other site 387344001726 ADP binding site [chemical binding]; other site 387344001727 catalytic site [active] 387344001728 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 387344001729 substrate binding site [chemical binding]; other site 387344001730 dimer interface [polypeptide binding]; other site 387344001731 catalytic triad [active] 387344001732 enolase; Provisional; Region: eno; PRK00077 387344001733 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 387344001734 dimer interface [polypeptide binding]; other site 387344001735 metal binding site [ion binding]; metal-binding site 387344001736 substrate binding pocket [chemical binding]; other site 387344001737 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 387344001738 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 387344001739 Cl- selectivity filter; other site 387344001740 Cl- binding residues [ion binding]; other site 387344001741 pore gating glutamate residue; other site 387344001742 dimer interface [polypeptide binding]; other site 387344001743 H+/Cl- coupling transport residue; other site 387344001744 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; cl15357 387344001745 Preprotein translocase SecG subunit; Region: SecG; cl09123 387344001746 Esterase/lipase [General function prediction only]; Region: COG1647 387344001747 ribonuclease R; Region: RNase_R; TIGR02063 387344001748 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 387344001749 RNB domain; Region: RNB; pfam00773 387344001750 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 important...; Region: S1_RNase_R; cd04471 387344001751 RNA binding site [nucleotide binding]; other site 387344001752 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 387344001753 SmpB-tmRNA interface; other site 387344001754 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 387344001755 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. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 387344001756 Walker A/P-loop; other site 387344001757 ATP binding site [chemical binding]; other site 387344001758 Q-loop/lid; other site 387344001759 ABC transporter signature motif; other site 387344001760 Walker B; other site 387344001761 D-loop; other site 387344001762 H-loop/switch region; other site 387344001763 Scramblase; Region: Scramblase; cl02043 387344001764 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 387344001765 ligand binding site [chemical binding]; other site 387344001766 active site 387344001767 UGI interface [polypeptide binding]; other site 387344001768 catalytic site [active] 387344001769 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 387344001770 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 387344001771 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 387344001772 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 387344001773 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 387344001774 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 387344001775 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 387344001776 active site 387344001777 catalytic tetrad [active] 387344001778 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 387344001779 active site 387344001780 catalytic site [active] 387344001781 substrate binding site [chemical binding]; other site 387344001782 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 387344001783 active site 387344001784 putative catalytic site [active] 387344001785 DNA binding site [nucleotide binding] 387344001786 putative phosphate binding site [ion binding]; other site 387344001787 metal binding site A [ion binding]; metal-binding site 387344001788 AP binding site [nucleotide binding]; other site 387344001789 metal binding site B [ion binding]; metal-binding site 387344001790 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 387344001791 FAD binding domain; Region: FAD_binding_4; pfam01565 387344001792 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 387344001793 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 387344001794 Protein of unknown function (DUF1361); Region: DUF1361; cl01784 387344001795 Uncharacterized conserved protein [Function unknown]; Region: COG1624 387344001796 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 387344001797 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 387344001798 YbbR-like protein; Region: YbbR; pfam07949 387344001799 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 387344001800 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 387344001801 active site 387344001802 substrate binding site [chemical binding]; other site 387344001803 metal binding site [ion binding]; metal-binding site 387344001804 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 387344001805 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 387344001806 glutaminase active site [active] 387344001807 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 387344001808 dimer interface [polypeptide binding]; other site 387344001809 active site 387344001810 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 387344001811 dimer interface [polypeptide binding]; other site 387344001812 active site 387344001813 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 387344001814 active site 387344001815 trimer interface [polypeptide binding]; other site 387344001816 allosteric site; other site 387344001817 active site lid [active] 387344001818 hexamer (dimer of trimers) interface [polypeptide binding]; other site 387344001819 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 387344001820 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 387344001821 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 387344001822 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387344001823 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 387344001824 Ferritin-like domain; Region: Ferritin; pfam00210 387344001825 dimerization interface [polypeptide binding]; other site 387344001826 DPS ferroxidase diiron center [ion binding]; other site 387344001827 ion pore; other site 387344001828 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 387344001829 metal-binding site [ion binding] 387344001830 teichoic acids export protein ATP-binding subunit; Provisional; Region: PRK13546 387344001831 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 387344001832 Walker A/P-loop; other site 387344001833 ATP binding site [chemical binding]; other site 387344001834 Q-loop/lid; other site 387344001835 ABC transporter signature motif; other site 387344001836 Walker B; other site 387344001837 D-loop; other site 387344001838 H-loop/switch region; other site 387344001839 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 387344001840 heme-binding site [chemical binding]; other site 387344001841 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 387344001842 heme-binding site [chemical binding]; other site 387344001843 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 387344001844 heme-binding site [chemical binding]; other site 387344001845 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 387344001846 heme-binding site [chemical binding]; other site 387344001847 heme ABC transporter, heme-binding protein isdE; Region: IsdE; TIGR03659 387344001848 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 387344001849 intersubunit interface [polypeptide binding]; other site 387344001850 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 387344001851 ABC-ATPase subunit interface; other site 387344001852 dimer interface [polypeptide binding]; other site 387344001853 putative PBP binding regions; other site 387344001854 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 387344001855 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 387344001856 Walker A/P-loop; other site 387344001857 ATP binding site [chemical binding]; other site 387344001858 Q-loop/lid; other site 387344001859 ABC transporter signature motif; other site 387344001860 Walker B; other site 387344001861 D-loop; other site 387344001862 H-loop/switch region; other site 387344001863 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 387344001864 polyphosphate kinase; Provisional; Region: PRK05443 387344001865 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 387344001866 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 387344001867 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 387344001868 putative domain interface [polypeptide binding]; other site 387344001869 putative active site [active] 387344001870 catalytic site [active] 387344001871 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 387344001872 putative domain interface [polypeptide binding]; other site 387344001873 putative active site [active] 387344001874 catalytic site [active] 387344001875 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 387344001876 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 387344001877 LicD family; Region: LicD; cl01378 387344001878 Helix-turn-helix domains; Region: HTH; cl00088 387344001879 OsmC-like protein; Region: OsmC; cl00767 387344001880 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 387344001881 fumarate hydratase; Reviewed; Region: fumC; PRK00485 387344001882 Class II fumarases; Region: Fumarase_classII; cd01362 387344001883 active site 387344001884 tetramer interface [polypeptide binding]; other site 387344001885 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_4; cd05681 387344001886 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 387344001887 metal binding site [ion binding]; metal-binding site 387344001888 dimer interface [polypeptide binding]; other site 387344001889 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344001890 Helix-turn-helix domains; Region: HTH; cl00088 387344001891 Integrase core domain; Region: rve; cl01316 387344001892 Protein of unknown function (DUF3923); Region: DUF3923; pfam13061 387344001893 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 387344001894 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 387344001895 S-adenosylmethionine binding site [chemical binding]; other site 387344001896 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 387344001897 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 387344001898 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 387344001899 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 387344001900 S-adenosylmethionine binding site [chemical binding]; other site 387344001901 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 387344001902 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 387344001903 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 387344001904 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 387344001905 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 387344001906 synthetase active site [active] 387344001907 NTP binding site [chemical binding]; other site 387344001908 metal binding site [ion binding]; metal-binding site 387344001909 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 387344001910 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 387344001911 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 387344001912 putative active site [active] 387344001913 dimerization interface [polypeptide binding]; other site 387344001914 putative tRNAtyr binding site [nucleotide binding]; other site 387344001915 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 387344001916 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 387344001917 motif II; other site 387344001918 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 387344001919 Phosphotransferase enzyme family; Region: APH; pfam01636 387344001920 active site 387344001921 substrate binding site [chemical binding]; other site 387344001922 ATP binding site [chemical binding]; other site 387344001923 Bacterial SH3 domain; Region: SH3_3; cl02551 387344001924 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 387344001925 active site 387344001926 metal binding site [ion binding]; metal-binding site 387344001927 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 387344001928 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 387344001929 dimer interface [polypeptide binding]; other site 387344001930 motif 1; other site 387344001931 active site 387344001932 motif 2; other site 387344001933 motif 3; other site 387344001934 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 387344001935 anticodon binding site; other site 387344001936 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 387344001937 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 387344001938 dimer interface [polypeptide binding]; other site 387344001939 anticodon binding site; other site 387344001940 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 387344001941 homodimer interface [polypeptide binding]; other site 387344001942 motif 1; other site 387344001943 active site 387344001944 motif 2; other site 387344001945 GAD domain; Region: GAD; pfam02938 387344001946 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 attaches...; Region: class_II_aaRS-like_core; cl00268 387344001947 active site 387344001948 motif 3; other site 387344001949 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 387344001950 Uncharacterized conserved protein [Function unknown]; Region: COG1284 387344001951 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 387344001952 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 387344001953 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 387344001954 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 387344001955 ABC-2 type transporter; Region: ABC2_membrane; cl11417 387344001956 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 387344001957 endonuclease IV; Provisional; Region: PRK01060 387344001958 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 387344001959 AP (apurinic/apyrimidinic) site pocket; other site 387344001960 DNA interaction; other site 387344001961 Metal-binding active site; metal-binding site 387344001962 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 387344001963 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 387344001964 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 387344001965 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 387344001966 putative NAD(P) binding site [chemical binding]; other site 387344001967 dimer interface [polypeptide binding]; other site 387344001968 Helix-turn-helix domains; Region: HTH; cl00088 387344001969 GatB domain; Region: GatB_Yqey; cl11497 387344001970 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 387344001971 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344001972 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 387344001973 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 387344001974 GTPase Era; Reviewed; Region: era; PRK00089 387344001975 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 387344001976 G1 box; other site 387344001977 GTP/Mg2+ binding site [chemical binding]; other site 387344001978 Switch I region; other site 387344001979 G2 box; other site 387344001980 Switch II region; other site 387344001981 G3 box; other site 387344001982 G4 box; other site 387344001983 G5 box; other site 387344001984 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 387344001985 DNA repair protein RecO; Region: reco; TIGR00613 387344001986 Recombination protein O N terminal; Region: RecO_N; cl15812 387344001987 Recombination protein O C terminal; Region: RecO_C; pfam02565 387344001988 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 387344001989 dimer interface [polypeptide binding]; other site 387344001990 motif 1; other site 387344001991 active site 387344001992 motif 2; other site 387344001993 motif 3; other site 387344001994 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 387344001995 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 387344001996 DNA primase; Validated; Region: dnaG; PRK05667 387344001997 CHC2 zinc finger; Region: zf-CHC2; cl15369 387344001998 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 387344001999 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 387344002000 active site 387344002001 metal binding site [ion binding]; metal-binding site 387344002002 interdomain interaction site; other site 387344002003 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 387344002004 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 387344002005 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 387344002006 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 387344002007 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 387344002008 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 387344002009 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 387344002010 Predicted transcriptional regulator [Transcription]; Region: COG1959 387344002011 Helix-turn-helix domains; Region: HTH; cl00088 387344002012 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 387344002013 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 387344002014 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 387344002015 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344002016 Uncharacterized conserved protein [Function unknown]; Region: COG0327 387344002017 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 387344002018 peptidase T; Region: peptidase-T; TIGR01882 387344002019 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 387344002020 metal binding site [ion binding]; metal-binding site 387344002021 dimer interface [polypeptide binding]; other site 387344002022 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 387344002023 Clp amino terminal domain; Region: Clp_N; pfam02861 387344002024 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 387344002025 Walker A motif; other site 387344002026 ATP binding site [chemical binding]; other site 387344002027 Walker B motif; other site 387344002028 arginine finger; other site 387344002029 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 387344002030 Walker A motif; other site 387344002031 ATP binding site [chemical binding]; other site 387344002032 Walker B motif; other site 387344002033 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 387344002034 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 387344002035 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 387344002036 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 387344002037 generic binding surface II; other site 387344002038 generic binding surface I; other site 387344002039 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 387344002040 catalytic residue [active] 387344002041 pyruvate kinase; Provisional; Region: PRK06354 387344002042 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 387344002043 domain interfaces; other site 387344002044 active site 387344002045 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 387344002046 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 387344002047 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 387344002048 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 387344002049 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 387344002050 active site 387344002051 Int/Topo IB signature motif; other site 387344002052 ScpA/B protein; Region: ScpA_ScpB; cl00598 387344002053 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 387344002054 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 387344002055 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 387344002056 RNA binding surface [nucleotide binding]; other site 387344002057 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 387344002058 active site 387344002059 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 387344002060 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 387344002061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 387344002062 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 387344002063 ATP binding site [chemical binding]; other site 387344002064 putative Mg++ binding site [ion binding]; other site 387344002065 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 387344002066 nucleotide binding region [chemical binding]; other site 387344002067 ATP-binding site [chemical binding]; other site 387344002068 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 387344002069 putative peptidoglycan binding site; other site 387344002070 cytidylate kinase; Provisional; Region: cmk; PRK00023 387344002071 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 387344002072 CMP-binding site; other site 387344002073 The sites determining sugar specificity; other site 387344002074 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 387344002075 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 387344002076 RNA binding site [nucleotide binding]; other site 387344002077 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 387344002078 RNA binding site [nucleotide binding]; other site 387344002079 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 387344002080 RNA binding site [nucleotide binding]; other site 387344002081 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 387344002082 RNA binding site [nucleotide binding]; other site 387344002083 GTP-binding protein Der; Reviewed; Region: PRK00093 387344002084 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 387344002085 G1 box; other site 387344002086 GTP/Mg2+ binding site [chemical binding]; other site 387344002087 Switch I region; other site 387344002088 G2 box; other site 387344002089 Switch II region; other site 387344002090 G3 box; other site 387344002091 G4 box; other site 387344002092 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 387344002093 G1 box; other site 387344002094 GTP/Mg2+ binding site [chemical binding]; other site 387344002095 Switch I region; other site 387344002096 G2 box; other site 387344002097 G3 box; other site 387344002098 Switch II region; other site 387344002099 G4 box; other site 387344002100 G5 box; other site 387344002101 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 387344002102 IHF dimer interface [polypeptide binding]; other site 387344002103 IHF - DNA interface [nucleotide binding]; other site 387344002104 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 387344002105 binding surface 387344002106 TPR motif; other site 387344002107 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 387344002108 TPR motif; other site 387344002109 binding surface 387344002110 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 387344002111 binding surface 387344002112 TPR motif; other site 387344002113 Uncharacterized conserved protein [Function unknown]; Region: COG1284 387344002114 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 387344002115 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 387344002116 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 387344002117 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 387344002118 active site 387344002119 NTP binding site [chemical binding]; other site 387344002120 metal binding triad [ion binding]; metal-binding site 387344002121 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 387344002122 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 387344002123 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 387344002124 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 facilitated...; Region: ABCF_EF-3; cd03221 387344002125 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 facilitated...; Region: ABCF_EF-3; cd03221 387344002126 ABC transporter; Region: ABC_tran_2; pfam12848 387344002127 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 facilitated...; Region: ABCF_EF-3; cd03221 387344002128 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 387344002129 dimerization interface [polypeptide binding]; other site 387344002130 active site 387344002131 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 387344002132 folate binding site [chemical binding]; other site 387344002133 NADP+ binding site [chemical binding]; other site 387344002134 Haemolysin-III related; Region: HlyIII; cl03831 387344002135 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 387344002136 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 387344002137 active site 387344002138 catalytic triad [active] 387344002139 oxyanion hole [active] 387344002140 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 387344002141 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 387344002142 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 387344002143 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 387344002144 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 387344002145 GTP/Mg2+ binding site [chemical binding]; other site 387344002146 G4 box; other site 387344002147 G5 box; other site 387344002148 G1 box; other site 387344002149 Switch I region; other site 387344002150 G2 box; other site 387344002151 G3 box; other site 387344002152 Switch II region; other site 387344002153 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 387344002154 RNA/DNA hybrid binding site [nucleotide binding]; other site 387344002155 active site 387344002156 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 387344002157 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 387344002158 DNA topoisomerase I; Validated; Region: PRK05582 387344002159 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 387344002160 active site 387344002161 interdomain interaction site; other site 387344002162 putative metal-binding site [ion binding]; other site 387344002163 nucleotide binding site [chemical binding]; other site 387344002164 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 387344002165 domain I; other site 387344002166 DNA binding groove [nucleotide binding] 387344002167 phosphate binding site [ion binding]; other site 387344002168 domain II; other site 387344002169 domain III; other site 387344002170 nucleotide binding site [chemical binding]; other site 387344002171 catalytic site [active] 387344002172 domain IV; other site 387344002173 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 387344002174 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 387344002175 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 387344002176 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 387344002177 active site 387344002178 Int/Topo IB signature motif; other site 387344002179 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 387344002180 active site 387344002181 HslU subunit interaction site [polypeptide binding]; other site 387344002182 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 387344002183 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 387344002184 Walker A motif; other site 387344002185 ATP binding site [chemical binding]; other site 387344002186 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344002187 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 387344002188 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 387344002189 active site 387344002190 catalytic residues [active] 387344002191 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 387344002192 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 387344002193 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 387344002194 ATP binding site [chemical binding]; other site 387344002195 Mg2+ binding site [ion binding]; other site 387344002196 G-X-G motif; other site 387344002197 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 387344002198 anchoring element; other site 387344002199 dimer interface [polypeptide binding]; other site 387344002200 ATP binding site [chemical binding]; other site 387344002201 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 387344002202 active site 387344002203 putative metal-binding site [ion binding]; other site 387344002204 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 387344002205 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 387344002206 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 DNA...; Region: TOP4c; cd00187 387344002207 CAP-like domain; other site 387344002208 active site 387344002209 primary dimer interface [polypeptide binding]; other site 387344002210 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 387344002211 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 387344002212 Transcriptional regulator [Transcription]; Region: LysR; COG0583 387344002213 Helix-turn-helix domains; Region: HTH; cl00088 387344002214 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 387344002215 dimerization interface [polypeptide binding]; other site 387344002216 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 387344002217 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 387344002218 DHHA2 domain; Region: DHHA2; pfam02833 387344002219 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 387344002220 active site 387344002221 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 387344002222 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 387344002223 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 387344002224 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 387344002225 nudix motif; other site 387344002226 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 387344002227 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 387344002228 active site 387344002229 DNA binding site [nucleotide binding] 387344002230 Int/Topo IB signature motif; other site 387344002231 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 387344002232 S-adenosylmethionine binding site [chemical binding]; other site 387344002233 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 387344002234 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 387344002235 active site 387344002236 metal binding site [ion binding]; metal-binding site 387344002237 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 387344002238 Quinone oxidoreductase (QOR); Region: quinone_oxidoreductase_like_1; cd08243 387344002239 putative NAD(P) binding site [chemical binding]; other site 387344002240 Helix-Turn-Helix DNA binding domain of BmrR-like transcription regulators; Region: HTH_BmrR-like; cd04768 387344002241 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 387344002242 DNA binding residues [nucleotide binding] 387344002243 drug binding residues [chemical binding]; other site 387344002244 dimer interface [polypeptide binding]; other site 387344002245 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 387344002246 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 387344002247 minor groove reading motif; other site 387344002248 helix-hairpin-helix signature motif; other site 387344002249 substrate binding pocket [chemical binding]; other site 387344002250 active site 387344002251 VanZ like family; Region: VanZ; cl01971 387344002252 GtrA-like protein; Region: GtrA; cl00971 387344002253 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 387344002254 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 387344002255 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 387344002256 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 387344002257 putative substrate translocation pore; other site 387344002258 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 387344002259 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 387344002260 Helix-turn-helix domains; Region: HTH; cl00088 387344002261 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 387344002262 Domain of unknown function (DUF814); Region: DUF814; pfam05670 387344002263 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK12815 387344002264 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 387344002265 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 387344002266 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 387344002267 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 387344002268 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 387344002269 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 387344002270 catalytic site [active] 387344002271 subunit interface [polypeptide binding]; other site 387344002272 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 387344002273 active site 387344002274 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 387344002275 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 387344002276 RNA binding surface [nucleotide binding]; other site 387344002277 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 and...; Region: PseudoU_synth_RluCD_like; cd02869 387344002278 active site 387344002279 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 387344002280 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 387344002281 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 387344002282 Potassium binding sites [ion binding]; other site 387344002283 Cesium cation binding sites [ion binding]; other site 387344002284 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 387344002285 RNA/DNA hybrid binding site [nucleotide binding]; other site 387344002286 active site 387344002287 FAD dependent oxidoreductase; Region: DAO; pfam01266 387344002288 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 387344002289 dimer interface [polypeptide binding]; other site 387344002290 FMN binding site [chemical binding]; other site 387344002291 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 387344002292 Helix-turn-helix domains; Region: HTH; cl00088 387344002293 CAAX protease self-immunity; Region: Abi; cl00558 387344002294 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 387344002295 nudix motif; other site 387344002296 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 387344002297 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 basis...; Region: HIT_like; cl00228 387344002298 nucleotide binding site/active site [active] 387344002299 HIT family signature motif; other site 387344002300 catalytic residue [active] 387344002301 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 387344002302 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344002303 cell division protein GpsB; Provisional; Region: PRK14127 387344002304 DivIVA domain; Region: DivI1A_domain; TIGR03544 387344002305 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 387344002306 Recombination protein U; Region: RecU; cl01314 387344002307 Transglycosylase; Region: Transgly; cl07896 387344002308 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 387344002309 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 387344002310 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; cl00125 387344002311 active site residue [active] 387344002312 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 387344002313 Helix-turn-helix domains; Region: HTH; cl00088 387344002314 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 387344002315 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 387344002316 aspartate aminotransferase; Provisional; Region: PRK05764 387344002317 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 387344002318 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387344002319 homodimer interface [polypeptide binding]; other site 387344002320 catalytic residue [active] 387344002321 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 387344002322 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 387344002323 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 387344002324 active site 387344002325 catalytic site [active] 387344002326 substrate binding site [chemical binding]; other site 387344002327 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344002328 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344002329 mevalonate kinase; Region: mevalon_kin; TIGR00549 387344002330 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 387344002331 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 387344002332 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 387344002333 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 387344002334 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 387344002335 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 387344002336 homotetramer interface [polypeptide binding]; other site 387344002337 FMN binding site [chemical binding]; other site 387344002338 homodimer contacts [polypeptide binding]; other site 387344002339 putative active site [active] 387344002340 putative substrate binding site [chemical binding]; other site 387344002341 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 387344002342 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 387344002343 S-adenosylmethionine binding site [chemical binding]; other site 387344002344 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; cl01283 387344002345 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 387344002346 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 387344002347 active site 387344002348 motif I; other site 387344002349 motif II; other site 387344002350 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 387344002351 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 387344002352 metal binding site [ion binding]; metal-binding site 387344002353 dimer interface [polypeptide binding]; other site 387344002354 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 387344002355 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 387344002356 active site 387344002357 catalytic tetrad [active] 387344002358 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 387344002359 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 387344002360 active site 387344002361 catalytic tetrad [active] 387344002362 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 387344002363 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 387344002364 catalytic Zn binding site [ion binding]; other site 387344002365 NAD(P) binding site [chemical binding]; other site 387344002366 structural Zn binding site [ion binding]; other site 387344002367 Uncharacterized protein conserved in bacteria (DUF2316); Region: DUF2316; cl01805 387344002368 Helix-turn-helix domains; Region: HTH; cl00088 387344002369 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 387344002370 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 387344002371 DNA binding residues [nucleotide binding] 387344002372 putative dimer interface [polypeptide binding]; other site 387344002373 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 387344002374 Quinone oxidoreductase (QOR); Region: quinone_oxidoreductase_like_1; cd08243 387344002375 putative NAD(P) binding site [chemical binding]; other site 387344002376 K+ potassium transporter; Region: K_trans; cl15781 387344002377 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 387344002378 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 387344002379 Helix-turn-helix domains; Region: HTH; cl00088 387344002380 ABC-2 type transporter; Region: ABC2_membrane; cl11417 387344002381 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 387344002382 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 387344002383 Walker A/P-loop; other site 387344002384 ATP binding site [chemical binding]; other site 387344002385 Q-loop/lid; other site 387344002386 ABC transporter signature motif; other site 387344002387 Walker B; other site 387344002388 D-loop; other site 387344002389 H-loop/switch region; other site 387344002390 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 387344002391 active site 387344002392 metal binding site [ion binding]; metal-binding site 387344002393 Low molecular weight phosphatase family; Region: LMWPc; cd00115 387344002394 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 387344002395 active site 387344002396 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 387344002397 Helix-turn-helix domains; Region: HTH; cl00088 387344002398 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 387344002399 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 387344002400 Walker A/P-loop; other site 387344002401 ATP binding site [chemical binding]; other site 387344002402 Q-loop/lid; other site 387344002403 ABC transporter signature motif; other site 387344002404 Walker B; other site 387344002405 D-loop; other site 387344002406 H-loop/switch region; other site 387344002407 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 387344002408 FtsX-like permease family; Region: FtsX; cl15850 387344002409 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 387344002410 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 387344002411 DXD motif; other site 387344002412 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 387344002413 Firmicu-CTERM domain; Region: Firmicu_CTERM; TIGR04145 387344002414 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 387344002415 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344002416 Helix-turn-helix domains; Region: HTH; cl00088 387344002417 Integrase core domain; Region: rve; cl01316 387344002418 glycerol kinase; Provisional; Region: glpK; PRK00047 387344002419 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 387344002420 N- and C-terminal domain interface [polypeptide binding]; other site 387344002421 active site 387344002422 MgATP binding site [chemical binding]; other site 387344002423 catalytic site [active] 387344002424 metal binding site [ion binding]; metal-binding site 387344002425 glycerol binding site [chemical binding]; other site 387344002426 homotetramer interface [polypeptide binding]; other site 387344002427 homodimer interface [polypeptide binding]; other site 387344002428 FBP binding site [chemical binding]; other site 387344002429 protein IIAGlc interface [polypeptide binding]; other site 387344002430 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 387344002431 active site 1 [active] 387344002432 dimer interface [polypeptide binding]; other site 387344002433 hexamer interface [polypeptide binding]; other site 387344002434 active site 2 [active] 387344002435 Uncharacterized conserved protein [Function unknown]; Region: COG1284 387344002436 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 387344002437 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 387344002438 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 387344002439 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 387344002440 Peptidase family C69; Region: Peptidase_C69; pfam03577 387344002441 inner membrane transporter YjeM; Provisional; Region: PRK15238 387344002442 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 387344002443 non-specific DNA binding site [nucleotide binding]; other site 387344002444 salt bridge; other site 387344002445 sequence-specific DNA binding site [nucleotide binding]; other site 387344002446 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 387344002447 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 387344002448 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 387344002449 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 387344002450 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 387344002451 tetramer interface [polypeptide binding]; other site 387344002452 heme binding pocket [chemical binding]; other site 387344002453 NADPH binding site [chemical binding]; other site 387344002454 GTPase RsgA; Reviewed; Region: PRK01889 387344002455 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 387344002456 RNA binding site [nucleotide binding]; other site 387344002457 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 387344002458 GTPase/Zn-binding domain interface [polypeptide binding]; other site 387344002459 GTP/Mg2+ binding site [chemical binding]; other site 387344002460 G4 box; other site 387344002461 G5 box; other site 387344002462 G1 box; other site 387344002463 Switch I region; other site 387344002464 G2 box; other site 387344002465 G3 box; other site 387344002466 Switch II region; other site 387344002467 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 387344002468 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 387344002469 active site 387344002470 catalytic tetrad [active] 387344002471 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 387344002472 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 387344002473 DNA binding residues [nucleotide binding] 387344002474 putative dimer interface [polypeptide binding]; other site 387344002475 Helix-turn-helix domains; Region: HTH; cl00088 387344002476 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 387344002477 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 387344002478 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 387344002479 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 387344002480 catalytic Zn binding site [ion binding]; other site 387344002481 NAD binding site [chemical binding]; other site 387344002482 structural Zn binding site [ion binding]; other site 387344002483 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 387344002484 conserved cys residue [active] 387344002485 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 387344002486 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 387344002487 LytTr DNA-binding domain; Region: LytTR; cl04498 387344002488 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 387344002489 Isochorismatase family; Region: Isochorismatase; pfam00857 387344002490 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 387344002491 catalytic triad [active] 387344002492 conserved cis-peptide bond; other site 387344002493 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 387344002494 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 387344002495 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 387344002496 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 387344002497 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 387344002498 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 387344002499 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 387344002500 NAD binding site [chemical binding]; other site 387344002501 homotetramer interface [polypeptide binding]; other site 387344002502 homodimer interface [polypeptide binding]; other site 387344002503 substrate binding site [chemical binding]; other site 387344002504 active site 387344002505 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 387344002506 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 387344002507 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 387344002508 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 387344002509 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 387344002510 ATP-grasp domain; Region: ATP-grasp_4; cl03087 387344002511 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 387344002512 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 387344002513 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 387344002514 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 387344002515 carboxyltransferase (CT) interaction site; other site 387344002516 biotinylation site [posttranslational modification]; other site 387344002517 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 387344002518 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 387344002519 dimer interface [polypeptide binding]; other site 387344002520 active site 387344002521 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344002522 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 387344002523 NAD(P) binding site [chemical binding]; other site 387344002524 active site 387344002525 Acyl transferase domain; Region: Acyl_transf_1; cl08282 387344002526 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 387344002527 Phosphopantetheine attachment site; Region: PP-binding; cl09936 387344002528 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 387344002529 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 387344002530 dimer interface [polypeptide binding]; other site 387344002531 active site 387344002532 CoA binding pocket [chemical binding]; other site 387344002533 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 387344002534 Helix-turn-helix domains; Region: HTH; cl00088 387344002535 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 387344002536 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 387344002537 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 387344002538 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 387344002539 RimM N-terminal domain; Region: RimM; pfam01782 387344002540 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 produce...; Region: PRCH; cl09959 387344002541 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 387344002542 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 387344002543 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 387344002544 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 387344002545 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 387344002546 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 387344002547 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344002548 Walker A motif; other site 387344002549 ATP binding site [chemical binding]; other site 387344002550 Walker B motif; other site 387344002551 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 387344002552 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 387344002553 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 387344002554 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 387344002555 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387344002556 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 387344002557 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 387344002558 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 387344002559 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 387344002560 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 387344002561 P loop; other site 387344002562 GTP binding site [chemical binding]; other site 387344002563 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 387344002564 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 387344002565 Walker A/P-loop; other site 387344002566 ATP binding site [chemical binding]; other site 387344002567 Q-loop/lid; other site 387344002568 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 387344002569 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 387344002570 ABC transporter signature motif; other site 387344002571 Walker B; other site 387344002572 D-loop; other site 387344002573 H-loop/switch region; other site 387344002574 ribonuclease III; Reviewed; Region: rnc; PRK00102 387344002575 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 387344002576 dimerization interface [polypeptide binding]; other site 387344002577 active site 387344002578 metal binding site [ion binding]; metal-binding site 387344002579 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 387344002580 dsRNA binding site [nucleotide binding]; other site 387344002581 Phosphopantetheine attachment site; Region: PP-binding; cl09936 387344002582 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 387344002583 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 387344002584 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 387344002585 generic binding surface II; other site 387344002586 ssDNA binding site; other site 387344002587 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 387344002588 ATP binding site [chemical binding]; other site 387344002589 putative Mg++ binding site [ion binding]; other site 387344002590 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 387344002591 nucleotide binding region [chemical binding]; other site 387344002592 ATP-binding site [chemical binding]; other site 387344002593 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 387344002594 DAK2 domain; Region: Dak2; cl03685 387344002595 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 387344002596 Asp23 family; Region: Asp23; cl00574 387344002597 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 387344002598 Thiamine pyrophosphokinase; Region: TPK; cd07995 387344002599 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 387344002600 active site 387344002601 dimerization interface [polypeptide binding]; other site 387344002602 thiamine binding site [chemical binding]; other site 387344002603 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 387344002604 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 387344002605 substrate binding site [chemical binding]; other site 387344002606 hexamer interface [polypeptide binding]; other site 387344002607 metal binding site [ion binding]; metal-binding site 387344002608 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 387344002609 GTPase RsgA; Reviewed; Region: PRK00098 387344002610 RNA binding site [nucleotide binding]; other site 387344002611 homodimer interface [polypeptide binding]; other site 387344002612 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 387344002613 GTPase/Zn-binding domain interface [polypeptide binding]; other site 387344002614 GTP/Mg2+ binding site [chemical binding]; other site 387344002615 G4 box; other site 387344002616 G5 box; other site 387344002617 G1 box; other site 387344002618 Switch I region; other site 387344002619 G2 box; other site 387344002620 G3 box; other site 387344002621 Switch II region; other site 387344002622 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 387344002623 Catalytic domain of Protein Kinases; Region: PKc; cd00180 387344002624 active site 387344002625 ATP binding site [chemical binding]; other site 387344002626 substrate binding site [chemical binding]; other site 387344002627 activation loop (A-loop); other site 387344002628 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 387344002629 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 387344002630 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 387344002631 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 387344002632 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 387344002633 active site 387344002634 16S rRNA methyltransferase B; Provisional; Region: PRK14902 387344002635 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...; Region: NusB_Sun; cl00223 387344002636 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 387344002637 S-adenosylmethionine binding site [chemical binding]; other site 387344002638 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 387344002639 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 387344002640 putative active site [active] 387344002641 substrate binding site [chemical binding]; other site 387344002642 putative cosubstrate binding site; other site 387344002643 catalytic site [active] 387344002644 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 387344002645 substrate binding site [chemical binding]; other site 387344002646 primosome assembly protein PriA; Validated; Region: PRK05580 387344002647 primosome assembly protein PriA; Validated; Region: PRK05580 387344002648 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 387344002649 ATP binding site [chemical binding]; other site 387344002650 putative Mg++ binding site [ion binding]; other site 387344002651 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 387344002652 nucleotide binding region [chemical binding]; other site 387344002653 ATP-binding site [chemical binding]; other site 387344002654 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 387344002655 Flavoprotein; Region: Flavoprotein; cl08021 387344002656 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 387344002657 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 387344002658 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 387344002659 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, and...; Region: ABC_RecN; cd03241 387344002660 Walker A/P-loop; other site 387344002661 ATP binding site [chemical binding]; other site 387344002662 Q-loop/lid; other site 387344002663 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, and...; Region: ABC_RecN; cd03241 387344002664 ABC transporter signature motif; other site 387344002665 Walker B; other site 387344002666 D-loop; other site 387344002667 H-loop/switch region; other site 387344002668 arginine repressor; Provisional; Region: PRK04280 387344002669 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 387344002670 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 387344002671 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 387344002672 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; cl15754 387344002673 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 387344002674 substrate binding pocket [chemical binding]; other site 387344002675 chain length determination region; other site 387344002676 substrate-Mg2+ binding site; other site 387344002677 catalytic residues [active] 387344002678 aspartate-rich region 1; other site 387344002679 active site lid residues [active] 387344002680 aspartate-rich region 2; other site 387344002681 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 387344002682 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 387344002683 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 387344002684 generic binding surface II; other site 387344002685 generic binding surface I; other site 387344002686 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 387344002687 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 387344002688 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 387344002689 homodimer interface [polypeptide binding]; other site 387344002690 NADP binding site [chemical binding]; other site 387344002691 substrate binding site [chemical binding]; other site 387344002692 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...; Region: NusB_Sun; cl00223 387344002693 putative RNA binding site [nucleotide binding]; other site 387344002694 Asp23 family; Region: Asp23; cl00574 387344002695 elongation factor P; Validated; Region: PRK00529 387344002696 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 387344002697 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 387344002698 RNA binding site [nucleotide binding]; other site 387344002699 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 387344002700 RNA binding site [nucleotide binding]; other site 387344002701 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 387344002702 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 387344002703 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 387344002704 active site 387344002705 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 387344002706 Protein of unknown function (DUF464); Region: DUF464; cl01080 387344002707 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 387344002708 Helix-turn-helix domains; Region: HTH; cl00088 387344002709 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 387344002710 Dimeric dUTPase [Carbohydrate transport and metabolism]; Region: COG4508 387344002711 dUTPase; Region: dUTPase_2; pfam08761 387344002712 glutamine synthetase, type I; Region: GlnA; TIGR00653 387344002713 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 387344002714 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 387344002715 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 387344002716 DNA binding residues [nucleotide binding] 387344002717 putative dimer interface [polypeptide binding]; other site 387344002718 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344002719 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 387344002720 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 387344002721 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 387344002722 active site 387344002723 catalytic site [active] 387344002724 metal binding site [ion binding]; metal-binding site 387344002725 dimer interface [polypeptide binding]; other site 387344002726 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 387344002727 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 387344002728 active site residue [active] 387344002729 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 387344002730 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 387344002731 Bacterial protein of unknown function (DUF910); Region: DUF910; cl11543 387344002732 Rhomboid family; Region: Rhomboid; cl11446 387344002733 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 387344002734 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 387344002735 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 387344002736 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 387344002737 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 387344002738 Domain of unknown function (DUF378); Region: DUF378; cl00943 387344002739 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 387344002740 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 387344002741 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 387344002742 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 387344002743 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 387344002744 Sugar specificity; other site 387344002745 Pyrimidine base specificity; other site 387344002746 ATP-binding site [chemical binding]; other site 387344002747 YceG-like family; Region: YceG; pfam02618 387344002748 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 387344002749 dimerization interface [polypeptide binding]; other site 387344002750 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 387344002751 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 387344002752 putative tRNA-binding site [nucleotide binding]; other site 387344002753 B3/4 domain; Region: B3_4; cl11458 387344002754 tRNA synthetase B5 domain; Region: B5; cl08394 387344002755 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 387344002756 dimer interface [polypeptide binding]; other site 387344002757 motif 1; other site 387344002758 motif 3; other site 387344002759 motif 2; other site 387344002760 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 387344002761 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 387344002762 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 387344002763 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 387344002764 dimer interface [polypeptide binding]; other site 387344002765 motif 1; other site 387344002766 active site 387344002767 motif 2; other site 387344002768 motif 3; other site 387344002769 Helix-turn-helix domains; Region: HTH; cl00088 387344002770 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 387344002771 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 387344002772 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 387344002773 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 387344002774 Acylphosphatase; Region: Acylphosphatase; cl00551 387344002775 OxaA-like protein precursor; Provisional; Region: PRK02463 387344002776 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 387344002777 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 387344002778 sensory histidine kinase CreC; Provisional; Region: PRK11100 387344002779 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 387344002780 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 387344002781 dimer interface [polypeptide binding]; other site 387344002782 phosphorylation site [posttranslational modification] 387344002783 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 387344002784 ATP binding site [chemical binding]; other site 387344002785 Mg2+ binding site [ion binding]; other site 387344002786 G-X-G motif; other site 387344002787 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387344002788 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 387344002789 active site 387344002790 phosphorylation site [posttranslational modification] 387344002791 intermolecular recognition site; other site 387344002792 dimerization interface [polypeptide binding]; other site 387344002793 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 387344002794 DNA binding site [nucleotide binding] 387344002795 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 387344002796 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 387344002797 NAD binding site [chemical binding]; other site 387344002798 substrate binding site [chemical binding]; other site 387344002799 catalytic Zn binding site [ion binding]; other site 387344002800 tetramer interface [polypeptide binding]; other site 387344002801 structural Zn binding site [ion binding]; other site 387344002802 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 387344002803 active site 387344002804 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 387344002805 dimerization interface [polypeptide binding]; other site 387344002806 putative DNA binding site [nucleotide binding]; other site 387344002807 putative Zn2+ binding site [ion binding]; other site 387344002808 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 387344002809 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 387344002810 active site 387344002811 motif I; other site 387344002812 motif II; other site 387344002813 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387344002814 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 387344002815 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 387344002816 hypothetical protein; Provisional; Region: PRK13670 387344002817 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 387344002818 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 387344002819 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 387344002820 S-adenosylmethionine binding site [chemical binding]; other site 387344002821 Oligomerisation domain; Region: Oligomerisation; cl00519 387344002822 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 387344002823 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 387344002824 Zn2+ binding site [ion binding]; other site 387344002825 Mg2+ binding site [ion binding]; other site 387344002826 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 387344002827 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 387344002828 active site 387344002829 (T/H)XGH motif; other site 387344002830 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 387344002831 GTPase YqeH; Provisional; Region: PRK13796 387344002832 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 387344002833 GTP/Mg2+ binding site [chemical binding]; other site 387344002834 G4 box; other site 387344002835 G5 box; other site 387344002836 G1 box; other site 387344002837 Switch I region; other site 387344002838 G2 box; other site 387344002839 G3 box; other site 387344002840 Switch II region; other site 387344002841 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 387344002842 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 387344002843 active site 387344002844 motif I; other site 387344002845 motif II; other site 387344002846 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 387344002847 23S rRNA binding site [nucleotide binding]; other site 387344002848 L21 binding site [polypeptide binding]; other site 387344002849 L13 binding site [polypeptide binding]; other site 387344002850 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 387344002851 translation initiation factor IF-3; Region: infC; TIGR00168 387344002852 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 387344002853 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 387344002854 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 387344002855 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 387344002856 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 387344002857 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 387344002858 active site 387344002859 dimer interface [polypeptide binding]; other site 387344002860 motif 1; other site 387344002861 motif 2; other site 387344002862 motif 3; other site 387344002863 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 387344002864 anticodon binding site; other site 387344002865 primosomal protein DnaI; Reviewed; Region: PRK08939 387344002866 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 387344002867 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 387344002868 Walker A motif; other site 387344002869 ATP binding site [chemical binding]; other site 387344002870 Walker B motif; other site 387344002871 arginine finger; other site 387344002872 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 387344002873 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 387344002874 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 387344002875 ATP cone domain; Region: ATP-cone; pfam03477 387344002876 dephospho-CoA kinase; Region: TIGR00152 387344002877 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 387344002878 CoA-binding site [chemical binding]; other site 387344002879 ATP-binding [chemical binding]; other site 387344002880 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 387344002881 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 387344002882 DNA binding site [nucleotide binding] 387344002883 catalytic residue [active] 387344002884 H2TH interface [polypeptide binding]; other site 387344002885 putative catalytic residues [active] 387344002886 turnover-facilitating residue; other site 387344002887 intercalation triad [nucleotide binding]; other site 387344002888 8OG recognition residue [nucleotide binding]; other site 387344002889 putative reading head residues; other site 387344002890 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 387344002891 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 387344002892 DNA polymerase I; Provisional; Region: PRK05755 387344002893 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 387344002894 active site 387344002895 metal binding site 1 [ion binding]; metal-binding site 387344002896 putative 5' ssDNA interaction site; other site 387344002897 metal binding site 3; metal-binding site 387344002898 metal binding site 2 [ion binding]; metal-binding site 387344002899 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 387344002900 putative DNA binding site [nucleotide binding]; other site 387344002901 putative metal binding site [ion binding]; other site 387344002902 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 387344002903 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 387344002904 active site 387344002905 DNA binding site [nucleotide binding] 387344002906 catalytic site [active] 387344002907 guanine deaminase; Region: guan_deamin; TIGR02967 387344002908 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 387344002909 active site 387344002910 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 387344002911 xanthine permease; Region: pbuX; TIGR03173 387344002912 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 387344002913 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 387344002914 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 387344002915 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 387344002916 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 387344002917 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 387344002918 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344002919 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 387344002920 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 387344002921 putative tRNA-binding site [nucleotide binding]; other site 387344002922 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 387344002923 catalytic residues [active] 387344002924 Predicted small secreted protein [Function unknown]; Region: COG5584 387344002925 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 387344002926 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 387344002927 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 387344002928 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344002929 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 387344002930 Ligand Binding Site [chemical binding]; other site 387344002931 dipeptidase PepV; Reviewed; Region: PRK07318 387344002932 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 387344002933 active site 387344002934 metal binding site [ion binding]; metal-binding site 387344002935 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 387344002936 putative substrate binding site [chemical binding]; other site 387344002937 putative ATP binding site [chemical binding]; other site 387344002938 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 387344002939 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 387344002940 RNA binding surface [nucleotide binding]; other site 387344002941 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 387344002942 active site 387344002943 MatE; Region: MatE; cl10513 387344002944 stage V sporulation protein B; Region: spore_V_B; TIGR02900 387344002945 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 387344002946 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 387344002947 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344002948 Walker A/P-loop; other site 387344002949 ATP binding site [chemical binding]; other site 387344002950 Q-loop/lid; other site 387344002951 ABC transporter signature motif; other site 387344002952 Walker B; other site 387344002953 D-loop; other site 387344002954 H-loop/switch region; other site 387344002955 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 387344002956 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 387344002957 HIGH motif; other site 387344002958 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 387344002959 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 387344002960 active site 387344002961 KMSKS motif; other site 387344002962 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 387344002963 tRNA binding surface [nucleotide binding]; other site 387344002964 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 387344002965 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 387344002966 active site 387344002967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344002968 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344002969 N-glycosyltransferase; Provisional; Region: PRK11204 387344002970 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 387344002971 DXD motif; other site 387344002972 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 387344002973 non-specific DNA binding site [nucleotide binding]; other site 387344002974 salt bridge; other site 387344002975 sequence-specific DNA binding site [nucleotide binding]; other site 387344002976 Domain of unknown function (DUF955); Region: DUF955; cl01076 387344002977 AtlA is an autolysin found in Gram-positive lactic acid bacteria that degrades bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues. This family includes the AtlA and Aml...; Region: GH25_AtlA-like; cd06522 387344002978 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 387344002979 active site 387344002980 Phage holin protein (Holin_LLH); Region: Holin_LLH; cl09890 387344002981 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 387344002982 Baseplate J-like protein; Region: Baseplate_J; cl01294 387344002983 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 387344002984 autolysin; Reviewed; Region: PRK06347 387344002985 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 387344002986 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 387344002987 Peptidase family M23; Region: Peptidase_M23; pfam01551 387344002988 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 387344002989 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 387344002990 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 387344002991 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 387344002992 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 387344002993 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 387344002994 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 387344002995 Phage terminase large subunit; Region: Terminase_3; cl12054 387344002996 Terminase-like family; Region: Terminase_6; pfam03237 387344002997 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 387344002998 active site 387344002999 DNA binding site [nucleotide binding] 387344003000 Int/Topo IB signature motif; other site 387344003001 Helix-turn-helix domains; Region: HTH; cl00088 387344003002 Terminase small subunit; Region: Terminase_2; cl01513 387344003003 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 387344003004 2-isopropylmalate synthase/homocitrate synthase family protein; Region: LeuA_rel; TIGR00977 387344003005 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 387344003006 Protein of unknown function (DUF968); Region: DUF968; pfam06147 387344003007 DnaB-like helicase C terminal domain; Region: DnaB_C; pfam03796 387344003008 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344003009 Walker A motif; other site 387344003010 ATP binding site [chemical binding]; other site 387344003011 Walker B motif; other site 387344003012 Helix-turn-helix domains; Region: HTH; cl00088 387344003013 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; cl09752 387344003014 Protein of unknown function (DUF669); Region: DUF669; pfam05037 387344003015 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 387344003016 phage nucleotide-binding protein; Region: phage_P_loop; TIGR01618 387344003017 AAA domain; Region: AAA_24; pfam13479 387344003018 Protein of unknown function (DUF1351); Region: DUF1351; pfam07083 387344003019 ORF6N domain; Region: ORF6N; pfam10543 387344003020 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 387344003021 non-specific DNA binding site [nucleotide binding]; other site 387344003022 salt bridge; other site 387344003023 sequence-specific DNA binding site [nucleotide binding]; other site 387344003024 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 387344003025 Domain of unknown function (DUF4393); Region: DUF4393; pfam14337 387344003026 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 387344003027 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 387344003028 DNA binding site [nucleotide binding] 387344003029 Int/Topo IB signature motif; other site 387344003030 active site 387344003031 catalytic residues [active] 387344003032 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 387344003033 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 387344003034 ArsC family; Region: ArsC; pfam03960 387344003035 putative catalytic residues [active] 387344003036 thiol/disulfide switch; other site 387344003037 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 387344003038 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 387344003039 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344003040 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 387344003041 Uncharacterized conserved protein [Function unknown]; Region: COG3410 387344003042 general stress protein 13; Validated; Region: PRK08059 387344003043 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 387344003044 RNA binding site [nucleotide binding]; other site 387344003045 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 387344003046 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 387344003047 active site 387344003048 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 387344003049 tetramer interfaces [polypeptide binding]; other site 387344003050 binuclear metal-binding site [ion binding]; other site 387344003051 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 387344003052 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 387344003053 classical (c) SDRs; Region: SDR_c; cd05233 387344003054 NAD(P) binding site [chemical binding]; other site 387344003055 active site 387344003056 amino acid transporter; Region: 2A0306; TIGR00909 387344003057 Spore germination protein; Region: Spore_permease; cl15802 387344003058 Collagen binding domain; Region: Collagen_bind; pfam05737 387344003059 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 387344003060 legume lectins; Region: lectin_L-type; cl14058 387344003061 homotetramer interaction site [polypeptide binding]; other site 387344003062 carbohydrate binding site [chemical binding]; other site 387344003063 metal binding site [ion binding]; metal-binding site 387344003064 WxL domain surface cell wall-binding; Region: WxL; pfam13731 387344003065 WxL domain surface cell wall-binding; Region: WxL; pfam13731 387344003066 Protein of unknown function (DUF1461); Region: DUF1461; cl01862 387344003067 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 387344003068 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 387344003069 active site 387344003070 motif I; other site 387344003071 motif II; other site 387344003072 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 387344003073 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 387344003074 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 387344003075 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 387344003076 active site 387344003077 metal binding site [ion binding]; metal-binding site 387344003078 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 387344003079 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 387344003080 putative active site [active] 387344003081 putative metal binding site [ion binding]; other site 387344003082 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 387344003083 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 387344003084 active site 387344003085 catalytic tetrad [active] 387344003086 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 387344003087 propionate/acetate kinase; Provisional; Region: PRK12379 387344003088 Acetokinase family; Region: Acetate_kinase; cl01029 387344003089 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 387344003090 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 387344003091 S-adenosylmethionine binding site [chemical binding]; other site 387344003092 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 387344003093 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 387344003094 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 387344003095 Type II/IV secretion system protein; Region: T2SE; pfam00437 387344003096 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344003097 Walker A motif; other site 387344003098 ATP binding site [chemical binding]; other site 387344003099 Walker B motif; other site 387344003100 Transcriptional regulator; Region: Transcrip_reg; cl00361 387344003101 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 387344003102 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 387344003103 substrate binding pocket [chemical binding]; other site 387344003104 membrane-bound complex binding site; other site 387344003105 hinge residues; other site 387344003106 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 387344003107 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 387344003108 dimer interface [polypeptide binding]; other site 387344003109 conserved gate region; other site 387344003110 putative PBP binding loops; other site 387344003111 ABC-ATPase subunit interface; other site 387344003112 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 387344003113 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. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 387344003114 Walker A/P-loop; other site 387344003115 ATP binding site [chemical binding]; other site 387344003116 Q-loop/lid; other site 387344003117 ABC transporter signature motif; other site 387344003118 Walker B; other site 387344003119 D-loop; other site 387344003120 H-loop/switch region; other site 387344003121 catabolite control protein A; Region: ccpA; TIGR01481 387344003122 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 387344003123 DNA binding site [nucleotide binding] 387344003124 domain linker motif; other site 387344003125 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 387344003126 dimerization interface [polypeptide binding]; other site 387344003127 effector binding site; other site 387344003128 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 387344003129 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 387344003130 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 387344003131 active site 387344003132 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 387344003133 Mechanosensitive ion channel; Region: MS_channel; pfam00924 387344003134 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 387344003135 Major Facilitator Superfamily; Region: MFS_1; pfam07690 387344003136 putative substrate translocation pore; other site 387344003137 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 387344003138 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 387344003139 dimerization interface [polypeptide binding]; other site 387344003140 putative DNA binding site [nucleotide binding]; other site 387344003141 putative Zn2+ binding site [ion binding]; other site 387344003142 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_30; cd04643 387344003143 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 387344003144 active site 387344003145 metal binding site [ion binding]; metal-binding site 387344003146 homotetramer interface [polypeptide binding]; other site 387344003147 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 387344003148 active site 387344003149 dimerization interface [polypeptide binding]; other site 387344003150 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 387344003151 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 387344003152 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 387344003153 catalytic residues [active] 387344003154 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 387344003155 MutS2 homologs in bacteria and 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 also...; Region: ABC_MutS2; cd03280 387344003156 Walker A/P-loop; other site 387344003157 ATP binding site [chemical binding]; other site 387344003158 Q-loop/lid; other site 387344003159 ABC transporter signature motif; other site 387344003160 Walker B; other site 387344003161 D-loop; other site 387344003162 H-loop/switch region; other site 387344003163 Plant ATP synthase F0; Region: YMF19; cl07975 387344003164 Smr domain; Region: Smr; cl02619 387344003165 Colicin V production protein; Region: Colicin_V; cl00567 387344003166 Cell division protein ZapA; Region: ZapA; cl01146 387344003167 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 387344003168 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 387344003169 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 387344003170 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 387344003171 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 of...; Region: AlaRS_core; cd00673 387344003172 motif 1; other site 387344003173 active site 387344003174 motif 2; other site 387344003175 motif 3; other site 387344003176 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 387344003177 DHHA1 domain; Region: DHHA1; pfam02272 387344003178 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 387344003179 DEAD-like helicases superfamily; Region: DEXDc; smart00487 387344003180 ATP binding site [chemical binding]; other site 387344003181 Mg++ binding site [ion binding]; other site 387344003182 motif III; other site 387344003183 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 387344003184 nucleotide binding region [chemical binding]; other site 387344003185 ATP-binding site [chemical binding]; other site 387344003186 DHH family; Region: DHH; pfam01368 387344003187 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 387344003188 active site 387344003189 DNA polymerase IV; Validated; Region: PRK02406 387344003190 DNA binding site [nucleotide binding] 387344003191 Preprotein translocase subunit; Region: YajC; cl00806 387344003192 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 387344003193 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 387344003194 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 387344003195 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 387344003196 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 387344003197 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 387344003198 Walker A motif; other site 387344003199 ATP binding site [chemical binding]; other site 387344003200 Walker B motif; other site 387344003201 arginine finger; other site 387344003202 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 387344003203 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 387344003204 RuvA N terminal domain; Region: RuvA_N; pfam01330 387344003205 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 387344003206 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 387344003207 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 387344003208 ATP binding site [chemical binding]; other site 387344003209 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 387344003210 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 387344003211 MutS domain I; Region: MutS_I; pfam01624 387344003212 MutS domain II; Region: MutS_II; pfam05188 387344003213 MutS family domain IV; Region: MutS_IV; pfam05190 387344003214 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 387344003215 Walker A/P-loop; other site 387344003216 ATP binding site [chemical binding]; other site 387344003217 Q-loop/lid; other site 387344003218 ABC transporter signature motif; other site 387344003219 Walker B; other site 387344003220 D-loop; other site 387344003221 H-loop/switch region; other site 387344003222 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 387344003223 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 387344003224 putative active site [active] 387344003225 metal binding site [ion binding]; metal-binding site 387344003226 homodimer binding site [polypeptide binding]; other site 387344003227 phosphodiesterase; Provisional; Region: PRK12704 387344003228 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 387344003229 recombinase A; Provisional; Region: recA; PRK09354 387344003230 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 387344003231 hexamer interface [polypeptide binding]; other site 387344003232 Walker A motif; other site 387344003233 ATP binding site [chemical binding]; other site 387344003234 Walker B motif; other site 387344003235 competence damage-inducible protein A; Provisional; Region: PRK00549 387344003236 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 387344003237 putative MPT binding site; other site 387344003238 Competence-damaged protein; Region: CinA; cl00666 387344003239 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 387344003240 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 387344003241 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 387344003242 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 387344003243 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 387344003244 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 387344003245 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 387344003246 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 387344003247 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 387344003248 substrate binding pocket [chemical binding]; other site 387344003249 membrane-bound complex binding site; other site 387344003250 hinge residues; other site 387344003251 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 387344003252 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 387344003253 dimer interface [polypeptide binding]; other site 387344003254 conserved gate region; other site 387344003255 putative PBP binding loops; other site 387344003256 ABC-ATPase subunit interface; other site 387344003257 septum site-determining protein MinD; Region: minD_bact; TIGR01968 387344003258 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 387344003259 Switch I; other site 387344003260 Switch II; other site 387344003261 septum formation inhibitor; Reviewed; Region: minC; PRK00513 387344003262 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 387344003263 rod shape-determining protein MreD; Region: MreD; cl01087 387344003264 rod shape-determining protein MreC; Provisional; Region: PRK13922 387344003265 rod shape-determining protein MreC; Region: MreC; pfam04085 387344003266 rod shape-determining protein MreB; Provisional; Region: PRK13927 387344003267 Cell division protein FtsA; Region: FtsA; cl11496 387344003268 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 387344003269 MPN+ (JAMM) motif; other site 387344003270 Zinc-binding site [ion binding]; other site 387344003271 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 387344003272 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 387344003273 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 387344003274 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 387344003275 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 387344003276 active site 387344003277 HIGH motif; other site 387344003278 nucleotide binding site [chemical binding]; other site 387344003279 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 387344003280 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 387344003281 active site 387344003282 KMSKS motif; other site 387344003283 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 387344003284 tRNA binding surface [nucleotide binding]; other site 387344003285 anticodon binding site; other site 387344003286 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 387344003287 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 387344003288 dimer interface [polypeptide binding]; other site 387344003289 catalytic triad [active] 387344003290 peroxidatic and resolving cysteines [active] 387344003291 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 387344003292 THUMP domain; Region: THUMP; cl12076 387344003293 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 387344003294 Ligand Binding Site [chemical binding]; other site 387344003295 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 387344003296 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 387344003297 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 387344003298 catalytic residue [active] 387344003299 Septation ring formation regulator, EzrA; Region: EzrA; pfam06160 387344003300 GAF domain; Region: GAF; cl15785 387344003301 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 387344003302 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 387344003303 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 387344003304 RNA binding surface [nucleotide binding]; other site 387344003305 Protein of unknown function (DUF1054); Region: DUF1054; cl11544 387344003306 Protein of unknown function (DUF1694); Region: DUF1694; cl02318 387344003307 recombination factor protein RarA; Reviewed; Region: PRK13342 387344003308 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 387344003309 Walker A motif; other site 387344003310 ATP binding site [chemical binding]; other site 387344003311 Walker B motif; other site 387344003312 arginine finger; other site 387344003313 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 387344003314 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 387344003315 Ligand Binding Site [chemical binding]; other site 387344003316 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 387344003317 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 387344003318 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 387344003319 putative active site [active] 387344003320 catalytic site [active] 387344003321 putative metal binding site [ion binding]; other site 387344003322 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 387344003323 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 387344003324 ATP-grasp domain; Region: ATP-grasp_4; cl03087 387344003325 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 387344003326 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 387344003327 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 387344003328 lipoyl attachment site [posttranslational modification]; other site 387344003329 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 387344003330 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 387344003331 Haemolytic domain; Region: Haemolytic; cl00506 387344003332 rod shape-determining protein MreB; Provisional; Region: PRK13930 387344003333 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 387344003334 ATP binding site [chemical binding]; other site 387344003335 profilin binding site; other site 387344003336 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 387344003337 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 387344003338 hinge; other site 387344003339 active site 387344003340 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 387344003341 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 387344003342 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 387344003343 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 387344003344 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 387344003345 alpha subunit interaction interface [polypeptide binding]; other site 387344003346 Walker A motif; other site 387344003347 ATP binding site [chemical binding]; other site 387344003348 Walker B motif; other site 387344003349 inhibitor binding site; inhibition site 387344003350 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 387344003351 ATP synthase; Region: ATP-synt; cl00365 387344003352 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 387344003353 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 387344003354 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 387344003355 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 387344003356 beta subunit interaction interface [polypeptide binding]; other site 387344003357 Walker A motif; other site 387344003358 ATP binding site [chemical binding]; other site 387344003359 Walker B motif; other site 387344003360 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 387344003361 Plant ATP synthase F0; Region: YMF19; cl07975 387344003362 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 387344003363 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 387344003364 Plant ATP synthase F0; Region: YMF19; cl07975 387344003365 ATP synthase subunit C; Region: ATP-synt_C; cl00466 387344003366 ATP synthase A chain; Region: ATP-synt_A; cl00413 387344003367 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 387344003368 active site 387344003369 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 387344003370 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 387344003371 dimer interface [polypeptide binding]; other site 387344003372 active site 387344003373 glycine-pyridoxal phosphate binding site [chemical binding]; other site 387344003374 folate binding site [chemical binding]; other site 387344003375 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 387344003376 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 387344003377 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 387344003378 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 387344003379 S-adenosylmethionine binding site [chemical binding]; other site 387344003380 peptide chain release factor 1; Validated; Region: prfA; PRK00591 387344003381 RF-1 domain; Region: RF-1; cl02875 387344003382 RF-1 domain; Region: RF-1; cl02875 387344003383 thymidine kinase; Provisional; Region: PRK04296 387344003384 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 387344003385 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 387344003386 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 387344003387 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 387344003388 catalytic triad [active] 387344003389 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 387344003390 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 387344003391 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 387344003392 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, and...; Region: ABCC_Glucan_exporter_like; cd03254 387344003393 Walker A/P-loop; other site 387344003394 ATP binding site [chemical binding]; other site 387344003395 Q-loop/lid; other site 387344003396 ABC transporter signature motif; other site 387344003397 Walker B; other site 387344003398 D-loop; other site 387344003399 H-loop/switch region; other site 387344003400 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 387344003401 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 387344003402 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344003403 Walker A/P-loop; other site 387344003404 ATP binding site [chemical binding]; other site 387344003405 Q-loop/lid; other site 387344003406 ABC transporter signature motif; other site 387344003407 Walker B; other site 387344003408 D-loop; other site 387344003409 H-loop/switch region; other site 387344003410 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 387344003411 metal binding site [ion binding]; metal-binding site 387344003412 active site 387344003413 I-site; other site 387344003414 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344003415 Helix-turn-helix domains; Region: HTH; cl00088 387344003416 Integrase core domain; Region: rve; cl01316 387344003417 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 387344003418 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; cl15357 387344003419 transmembrane helices; other site 387344003420 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators of...; Region: VIP2; cl00173 387344003421 active site 387344003422 conformational flexibility of ligand binding pocket; other site 387344003423 ADP-ribosylating toxin turn-turn motif; other site 387344003424 Transposase domain (DUF772); Region: DUF772; cl15789 387344003425 Transposase domain (DUF772); Region: DUF772; cl15789 387344003426 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 387344003427 TspO/MBR family; Region: TspO_MBR; cl01379 387344003428 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 387344003429 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 387344003430 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 387344003431 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 387344003432 active site 387344003433 dimer interface [polypeptide binding]; other site 387344003434 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 387344003435 dimer interface [polypeptide binding]; other site 387344003436 active site 387344003437 Sugar transport protein; Region: Sugar_transport; pfam06800 387344003438 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 387344003439 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; cl15754 387344003440 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 387344003441 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 387344003442 dimerization interface [polypeptide binding]; other site 387344003443 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 387344003444 dimer interface [polypeptide binding]; other site 387344003445 phosphorylation site [posttranslational modification] 387344003446 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 387344003447 ATP binding site [chemical binding]; other site 387344003448 Mg2+ binding site [ion binding]; other site 387344003449 G-X-G motif; other site 387344003450 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387344003451 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 387344003452 active site 387344003453 phosphorylation site [posttranslational modification] 387344003454 intermolecular recognition site; other site 387344003455 dimerization interface [polypeptide binding]; other site 387344003456 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 387344003457 DNA binding site [nucleotide binding] 387344003458 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344003459 Helix-turn-helix domains; Region: HTH; cl00088 387344003460 Integrase core domain; Region: rve; cl01316 387344003461 GTP-binding protein LepA; Provisional; Region: PRK05433 387344003462 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 387344003463 G1 box; other site 387344003464 putative GEF interaction site [polypeptide binding]; other site 387344003465 GTP/Mg2+ binding site [chemical binding]; other site 387344003466 Switch I region; other site 387344003467 G2 box; other site 387344003468 G3 box; other site 387344003469 Switch II region; other site 387344003470 G4 box; other site 387344003471 G5 box; other site 387344003472 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 387344003473 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 387344003474 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 387344003475 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 387344003476 DltD N-terminal region; Region: DltD_N; pfam04915 387344003477 DltD central region; Region: DltD_M; pfam04918 387344003478 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 387344003479 Phosphopantetheine attachment site; Region: PP-binding; cl09936 387344003480 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 387344003481 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 387344003482 AMP-binding enzyme; Region: AMP-binding; cl15778 387344003483 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 387344003484 chaperone protein DnaJ; Provisional; Region: PRK14276 387344003485 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 387344003486 HSP70 interaction site [polypeptide binding]; other site 387344003487 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 387344003488 substrate binding site [polypeptide binding]; other site 387344003489 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 387344003490 Zn binding sites [ion binding]; other site 387344003491 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 387344003492 dimer interface [polypeptide binding]; other site 387344003493 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 387344003494 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 387344003495 dimer interface [polypeptide binding]; other site 387344003496 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 387344003497 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 387344003498 Helix-turn-helix domains; Region: HTH; cl00088 387344003499 HrcA protein C terminal domain; Region: HrcA; pfam01628 387344003500 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 387344003501 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 387344003502 active site 387344003503 Riboflavin kinase; Region: Flavokinase; cl03312 387344003504 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 387344003505 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 specific...; Region: PseudoU_synth_EcTruB; cd02573 387344003506 RNA binding site [nucleotide binding]; other site 387344003507 active site 387344003508 Ribosome-binding factor A; Region: RBFA; cl00542 387344003509 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 387344003510 translation initiation factor IF-2; Region: IF-2; TIGR00487 387344003511 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 387344003512 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 387344003513 G1 box; other site 387344003514 putative GEF interaction site [polypeptide binding]; other site 387344003515 GTP/Mg2+ binding site [chemical binding]; other site 387344003516 Switch I region; other site 387344003517 G2 box; other site 387344003518 G3 box; other site 387344003519 Switch II region; other site 387344003520 G4 box; other site 387344003521 G5 box; other site 387344003522 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 387344003523 Translation-initiation factor 2; Region: IF-2; pfam11987 387344003524 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 387344003525 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 387344003526 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 387344003527 putative RNA binding cleft [nucleotide binding]; other site 387344003528 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 387344003529 NusA N-terminal domain; Region: NusA_N; pfam08529 387344003530 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 387344003531 RNA binding site [nucleotide binding]; other site 387344003532 homodimer interface [polypeptide binding]; other site 387344003533 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 387344003534 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 387344003535 G-X-X-G motif; other site 387344003536 ribosome maturation protein RimP; Reviewed; Region: PRK00092 387344003537 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 of...; Region: Sm_like; cl00259 387344003538 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 387344003539 Sm1 motif; other site 387344003540 predicted subunit interaction site [polypeptide binding]; other site 387344003541 RNA binding pocket [nucleotide binding]; other site 387344003542 Sm2 motif; other site 387344003543 DNA polymerase III PolC; Validated; Region: polC; PRK00448 387344003544 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 387344003545 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 387344003546 generic binding surface II; other site 387344003547 generic binding surface I; other site 387344003548 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 387344003549 active site 387344003550 catalytic site [active] 387344003551 substrate binding site [chemical binding]; other site 387344003552 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 387344003553 prolyl-tRNA synthetase; Provisional; Region: PRK09194 387344003554 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 of...; Region: ProRS_core_prok; cd00779 387344003555 dimer interface [polypeptide binding]; other site 387344003556 motif 1; other site 387344003557 active site 387344003558 motif 2; other site 387344003559 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 387344003560 putative deacylase active site [active] 387344003561 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 attaches...; Region: class_II_aaRS-like_core; cl00268 387344003562 active site 387344003563 motif 3; other site 387344003564 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 387344003565 anticodon binding site; other site 387344003566 RIP metalloprotease RseP; Region: TIGR00054 387344003567 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 387344003568 active site 387344003569 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 387344003570 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 387344003571 protein binding site [polypeptide binding]; other site 387344003572 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 387344003573 putative substrate binding region [chemical binding]; other site 387344003574 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 387344003575 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 387344003576 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 387344003577 catalytic residue [active] 387344003578 putative FPP diphosphate binding site; other site 387344003579 putative FPP binding hydrophobic cleft; other site 387344003580 dimer interface [polypeptide binding]; other site 387344003581 putative IPP diphosphate binding site; other site 387344003582 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 387344003583 putative nucleotide binding site [chemical binding]; other site 387344003584 uridine monophosphate binding site [chemical binding]; other site 387344003585 homohexameric interface [polypeptide binding]; other site 387344003586 elongation factor Ts; Provisional; Region: tsf; PRK09377 387344003587 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 387344003588 Elongation factor TS; Region: EF_TS; pfam00889 387344003589 Elongation factor TS; Region: EF_TS; pfam00889 387344003590 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 387344003591 rRNA interaction site [nucleotide binding]; other site 387344003592 S8 interaction site; other site 387344003593 putative laminin-1 binding site; other site 387344003594 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 387344003595 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 387344003596 motif II; other site 387344003597 D-lactate dehydrogenase; Validated; Region: PRK08605 387344003598 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344003599 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 387344003600 GIY-YIG motif/motif A; other site 387344003601 putative active site [active] 387344003602 putative metal binding site [ion binding]; other site 387344003603 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 387344003604 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 387344003605 S-adenosylmethionine binding site [chemical binding]; other site 387344003606 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 387344003607 putative acyl-acceptor binding pocket; other site 387344003608 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 387344003609 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 387344003610 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, and...; Region: ABCC_Glucan_exporter_like; cd03254 387344003611 Walker A/P-loop; other site 387344003612 ATP binding site [chemical binding]; other site 387344003613 Q-loop/lid; other site 387344003614 ABC transporter signature motif; other site 387344003615 Walker B; other site 387344003616 D-loop; other site 387344003617 H-loop/switch region; other site 387344003618 Uncharacterized protein family (UPF0154); Region: UPF0154; cl01536 387344003619 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 387344003620 TIR domain; Region: TIR_2; cl15770 387344003621 '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 the...; Region: init_cond_enzymes; cd00827 387344003622 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 387344003623 dimer interface [polypeptide binding]; other site 387344003624 active site 387344003625 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 387344003626 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 387344003627 catalytic core [active] 387344003628 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 387344003629 PspC domain; Region: PspC; cl00864 387344003630 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 387344003631 active site 387344003632 multimer interface [polypeptide binding]; other site 387344003633 TIR domain; Region: TIR_2; cl15770 387344003634 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 387344003635 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 387344003636 CsbD-like; Region: CsbD; cl15799 387344003637 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 387344003638 Ligand Binding Site [chemical binding]; other site 387344003639 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 387344003640 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 387344003641 active site 387344003642 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 387344003643 DHH family; Region: DHH; pfam01368 387344003644 DHHA1 domain; Region: DHHA1; pfam02272 387344003645 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 387344003646 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 387344003647 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 387344003648 GTPase CgtA; Reviewed; Region: obgE; PRK12297 387344003649 GTP1/OBG; Region: GTP1_OBG; pfam01018 387344003650 Obg GTPase; Region: Obg; cd01898 387344003651 G1 box; other site 387344003652 GTP/Mg2+ binding site [chemical binding]; other site 387344003653 Switch I region; other site 387344003654 G2 box; other site 387344003655 G3 box; other site 387344003656 Switch II region; other site 387344003657 G4 box; other site 387344003658 G5 box; other site 387344003659 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 387344003660 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 387344003661 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 387344003662 GIY-YIG motif/motif A; other site 387344003663 active site 387344003664 catalytic site [active] 387344003665 putative DNA binding site [nucleotide binding]; other site 387344003666 metal binding site [ion binding]; metal-binding site 387344003667 UvrB/uvrC motif; Region: UVR; pfam02151 387344003668 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 387344003669 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 387344003670 DNA binding site [nucleotide binding] 387344003671 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 387344003672 Predicted GTPase [General function prediction only]; Region: COG0218 387344003673 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 387344003674 G1 box; other site 387344003675 GTP/Mg2+ binding site [chemical binding]; other site 387344003676 Switch I region; other site 387344003677 G2 box; other site 387344003678 G3 box; other site 387344003679 Switch II region; other site 387344003680 G4 box; other site 387344003681 G5 box; other site 387344003682 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 387344003683 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 387344003684 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 387344003685 Walker A motif; other site 387344003686 ATP binding site [chemical binding]; other site 387344003687 Walker B motif; other site 387344003688 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 387344003689 trigger factor; Provisional; Region: tig; PRK01490 387344003690 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 387344003691 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 387344003692 elongation factor Tu; Reviewed; Region: PRK12736 387344003693 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 387344003694 G1 box; other site 387344003695 GEF interaction site [polypeptide binding]; other site 387344003696 GTP/Mg2+ binding site [chemical binding]; other site 387344003697 Switch I region; other site 387344003698 G2 box; other site 387344003699 G3 box; other site 387344003700 Switch II region; other site 387344003701 G4 box; other site 387344003702 G5 box; other site 387344003703 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 387344003704 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 387344003705 Antibiotic Binding Site [chemical binding]; other site 387344003706 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 387344003707 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 387344003708 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 387344003709 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 387344003710 16S/18S rRNA binding site [nucleotide binding]; other site 387344003711 S13e-L30e interaction site [polypeptide binding]; other site 387344003712 25S rRNA binding site [nucleotide binding]; other site 387344003713 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 387344003714 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 387344003715 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 387344003716 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 387344003717 Competence protein; Region: Competence; cl00471 387344003718 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 387344003719 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 387344003720 catalytic motif [active] 387344003721 Zn binding site [ion binding]; other site 387344003722 SLBB domain; Region: SLBB; pfam10531 387344003723 comEA protein; Region: comE; TIGR01259 387344003724 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 387344003725 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 387344003726 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 387344003727 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 387344003728 active site 387344003729 (T/H)XGH motif; other site 387344003730 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 387344003731 S-adenosylmethionine binding site [chemical binding]; other site 387344003732 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; cl11453 387344003733 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 387344003734 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 387344003735 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 387344003736 putative GEF interaction site [polypeptide binding]; other site 387344003737 G1 box; other site 387344003738 GTP/Mg2+ binding site [chemical binding]; other site 387344003739 Switch I region; other site 387344003740 G2 box; other site 387344003741 G3 box; other site 387344003742 Switch II region; other site 387344003743 G4 box; other site 387344003744 G5 box; other site 387344003745 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 387344003746 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 387344003747 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 387344003748 active site 387344003749 Uncharacterized protein family (UPF0223); Region: UPF0223; cl11484 387344003750 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344003751 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 387344003752 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344003753 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 387344003754 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 387344003755 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 387344003756 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 387344003757 E3 interaction surface; other site 387344003758 lipoyl attachment site [posttranslational modification]; other site 387344003759 e3 binding domain; Region: E3_binding; pfam02817 387344003760 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 387344003761 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 387344003762 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 387344003763 alpha subunit interface [polypeptide binding]; other site 387344003764 TPP binding site [chemical binding]; other site 387344003765 heterodimer interface [polypeptide binding]; other site 387344003766 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 387344003767 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 387344003768 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 387344003769 TPP-binding site [chemical binding]; other site 387344003770 tetramer interface [polypeptide binding]; other site 387344003771 heterodimer interface [polypeptide binding]; other site 387344003772 phosphorylation loop region [posttranslational modification] 387344003773 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 387344003774 active site 387344003775 catalytic residues [active] 387344003776 metal binding site [ion binding]; metal-binding site 387344003777 Protein of unknown function (DUF1447); Region: DUF1447; cl11492 387344003778 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 387344003779 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 387344003780 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 387344003781 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 387344003782 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 387344003783 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 387344003784 putative peptidoglycan binding site; other site 387344003785 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 387344003786 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 387344003787 putative peptidoglycan binding site; other site 387344003788 NlpC/P60 family; Region: NLPC_P60; cl11438 387344003789 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 387344003790 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 387344003791 NlpC/P60 family; Region: NLPC_P60; cl11438 387344003792 transketolase; Reviewed; Region: PRK05899 387344003793 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 387344003794 TPP-binding site [chemical binding]; other site 387344003795 dimer interface [polypeptide binding]; other site 387344003796 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 387344003797 PYR/PP interface [polypeptide binding]; other site 387344003798 dimer interface [polypeptide binding]; other site 387344003799 TPP binding site [chemical binding]; other site 387344003800 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 387344003801 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 387344003802 substrate binding site [chemical binding]; other site 387344003803 dimer interface [polypeptide binding]; other site 387344003804 ATP binding site [chemical binding]; other site 387344003805 Transcriptional regulators [Transcription]; Region: PurR; COG1609 387344003806 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 387344003807 DNA binding site [nucleotide binding] 387344003808 domain linker motif; other site 387344003809 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 387344003810 dimerization interface [polypeptide binding]; other site 387344003811 ligand binding site [chemical binding]; other site 387344003812 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 387344003813 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 387344003814 active site 387344003815 catalytic tetrad [active] 387344003816 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 387344003817 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 387344003818 putative active site [active] 387344003819 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 387344003820 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 387344003821 peptide binding site [polypeptide binding]; other site 387344003822 amidase; Provisional; Region: PRK06529 387344003823 Amidase; Region: Amidase; cl11426 387344003824 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 387344003825 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 387344003826 substrate binding pocket [chemical binding]; other site 387344003827 membrane-bound complex binding site; other site 387344003828 hinge residues; other site 387344003829 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 387344003830 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 387344003831 dimer interface [polypeptide binding]; other site 387344003832 conserved gate region; other site 387344003833 putative PBP binding loops; other site 387344003834 ABC-ATPase subunit interface; other site 387344003835 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 387344003836 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 387344003837 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 387344003838 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 387344003839 active site 387344003840 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 387344003841 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344003842 Family description; Region: UvrD_C_2; cl15862 387344003843 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 387344003844 binding surface 387344003845 TPR motif; other site 387344003846 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 387344003847 binding surface 387344003848 TPR motif; other site 387344003849 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 387344003850 catalytic core [active] 387344003851 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 387344003852 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 387344003853 Putative amino acid metabolism; Region: DUF1831; pfam08866 387344003854 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 387344003855 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 387344003856 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 387344003857 catalytic residue [active] 387344003858 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 387344003859 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 387344003860 dimer interface [polypeptide binding]; other site 387344003861 ADP-ribose binding site [chemical binding]; other site 387344003862 active site 387344003863 nudix motif; other site 387344003864 metal binding site [ion binding]; metal-binding site 387344003865 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 387344003866 DNA-binding site [nucleotide binding]; DNA binding site 387344003867 RNA-binding motif; other site 387344003868 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 387344003869 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 387344003870 active site 387344003871 HIGH motif; other site 387344003872 nucleotide binding site [chemical binding]; other site 387344003873 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 387344003874 active site 387344003875 KMSKS motif; other site 387344003876 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 387344003877 tRNA binding surface [nucleotide binding]; other site 387344003878 anticodon binding site; other site 387344003879 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 387344003880 DivIVA protein; Region: DivIVA; pfam05103 387344003881 DivIVA domain; Region: DivI1A_domain; TIGR03544 387344003882 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 387344003883 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 387344003884 RNA binding surface [nucleotide binding]; other site 387344003885 YGGT family; Region: YGGT; cl00508 387344003886 Protein of unknown function (DUF552); Region: DUF552; cl00775 387344003887 cell division protein FtsZ; Validated; Region: PRK09330 387344003888 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 387344003889 nucleotide binding site [chemical binding]; other site 387344003890 SulA interaction site; other site 387344003891 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 387344003892 Cell division protein FtsA; Region: FtsA; cl11496 387344003893 Cell division protein FtsA; Region: FtsA; cl11496 387344003894 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 387344003895 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 387344003896 Cell division protein FtsQ; Region: FtsQ; pfam03799 387344003897 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 387344003898 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 387344003899 active site 387344003900 homodimer interface [polypeptide binding]; other site 387344003901 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344003902 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 387344003903 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 387344003904 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 387344003905 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 387344003906 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 387344003907 Mg++ binding site [ion binding]; other site 387344003908 putative catalytic motif [active] 387344003909 putative substrate binding site [chemical binding]; other site 387344003910 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 387344003911 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 387344003912 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 387344003913 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 387344003914 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 387344003915 Septum formation initiator; Region: DivIC; cl11433 387344003916 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 387344003917 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344003918 cell division protein MraZ; Reviewed; Region: PRK00326 387344003919 MraZ protein; Region: MraZ; pfam02381 387344003920 MraZ protein; Region: MraZ; pfam02381 387344003921 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 387344003922 Protein of unknown function (DUF4044); Region: DUF4044; pfam13253 387344003923 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 387344003924 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344003925 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 387344003926 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 387344003927 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 387344003928 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344003929 Domain of unknown function DUF20; Region: UPF0118; pfam01594 387344003930 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 387344003931 CutC family; Region: CutC; cl01218 387344003932 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 387344003933 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 387344003934 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 387344003935 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 387344003936 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 387344003937 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 387344003938 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 387344003939 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 and...; Region: PseudoU_synth_RluCD_like; cd02869 387344003940 active site 387344003941 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 387344003942 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 387344003943 synthetase active site [active] 387344003944 NTP binding site [chemical binding]; other site 387344003945 metal binding site [ion binding]; metal-binding site 387344003946 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 387344003947 Thioredoxin; Region: Thioredoxin_5; pfam13743 387344003948 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 387344003949 oligoendopeptidase F; Region: pepF; TIGR00181 387344003950 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 387344003951 active site 387344003952 Zn binding site [ion binding]; other site 387344003953 Competence protein CoiA-like family; Region: CoiA; cl11541 387344003954 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 387344003955 S-adenosylmethionine binding site [chemical binding]; other site 387344003956 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 387344003957 Phosphotransferase enzyme family; Region: APH; pfam01636 387344003958 active site 387344003959 substrate binding site [chemical binding]; other site 387344003960 ATP binding site [chemical binding]; other site 387344003961 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 387344003962 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 387344003963 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 387344003964 Walker A/P-loop; other site 387344003965 ATP binding site [chemical binding]; other site 387344003966 Q-loop/lid; other site 387344003967 ABC transporter signature motif; other site 387344003968 Walker B; other site 387344003969 D-loop; other site 387344003970 H-loop/switch region; other site 387344003971 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 387344003972 HIT family signature motif; other site 387344003973 catalytic residue [active] 387344003974 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 387344003975 PPIC-type PPIASE domain; Region: Rotamase; cl08278 387344003976 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 387344003977 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 387344003978 generic binding surface II; other site 387344003979 generic binding surface I; other site 387344003980 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 387344003981 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 387344003982 Uncharacterized conserved protein [Function unknown]; Region: COG4717 387344003983 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344003984 Uncharacterized conserved protein [Function unknown]; Region: COG4717 387344003985 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 387344003986 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 387344003987 active site 387344003988 metal binding site [ion binding]; metal-binding site 387344003989 DNA binding site [nucleotide binding] 387344003990 Protein of unknown function (DUF964); Region: DUF964; cl01483 387344003991 Transglycosylase; Region: Transgly; cl07896 387344003992 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 387344003993 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 387344003994 Arginine repressor [Transcription]; Region: ArgR; COG1438 387344003995 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 387344003996 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 387344003997 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 387344003998 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 387344003999 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 387344004000 active site 387344004001 HIGH motif; other site 387344004002 KMSK motif region; other site 387344004003 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 387344004004 tRNA binding surface [nucleotide binding]; other site 387344004005 anticodon binding site; other site 387344004006 Transposase domain (DUF772); Region: DUF772; cl15789 387344004007 Transposase domain (DUF772); Region: DUF772; cl15789 387344004008 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 387344004009 amidase catalytic site [active] 387344004010 Zn binding residues [ion binding]; other site 387344004011 substrate binding site [chemical binding]; other site 387344004012 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 387344004013 Protein of unknown function (DUF1516); Region: DUF1516; cl11654 387344004014 aspartate racemase; Region: asp_race; TIGR00035 387344004015 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 387344004016 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 387344004017 ATP-grasp domain; Region: ATP-grasp_4; cl03087 387344004018 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 387344004019 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 387344004020 active site 387344004021 dimer interface [polypeptide binding]; other site 387344004022 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 387344004023 Ligand Binding Site [chemical binding]; other site 387344004024 Molecular Tunnel; other site 387344004025 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 387344004026 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 387344004027 ligand binding site [chemical binding]; other site 387344004028 flexible hinge region; other site 387344004029 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 387344004030 putative switch regulator; other site 387344004031 non-specific DNA interactions [nucleotide binding]; other site 387344004032 DNA binding site [nucleotide binding] 387344004033 sequence specific DNA binding site [nucleotide binding]; other site 387344004034 putative cAMP binding site [chemical binding]; other site 387344004035 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 387344004036 Peptidase family C69; Region: Peptidase_C69; pfam03577 387344004037 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344004038 Walker A/P-loop; other site 387344004039 ATP binding site [chemical binding]; other site 387344004040 Q-loop/lid; other site 387344004041 TIGR00373 family protein; Region: TIGR00373 387344004042 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344004043 ABC transporter signature motif; other site 387344004044 Walker B; other site 387344004045 D-loop; other site 387344004046 H-loop/switch region; other site 387344004047 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344004048 Walker A/P-loop; other site 387344004049 ATP binding site [chemical binding]; other site 387344004050 Q-loop/lid; other site 387344004051 ABC transporter signature motif; other site 387344004052 Walker B; other site 387344004053 D-loop; other site 387344004054 H-loop/switch region; other site 387344004055 Helix-turn-helix domains; Region: HTH; cl00088 387344004056 Helix-turn-helix domains; Region: HTH; cl00088 387344004057 Integrase core domain; Region: rve; cl01316 387344004058 Integrase core domain; Region: rve_3; cl15866 387344004059 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 387344004060 VanZ like family; Region: VanZ; cl01971 387344004061 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 387344004062 Helix-turn-helix domains; Region: HTH; cl00088 387344004063 Helix-turn-helix domains; Region: HTH; cl00088 387344004064 CAAX protease self-immunity; Region: Abi; cl00558 387344004065 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 387344004066 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344004067 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 387344004068 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 387344004069 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 387344004070 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 387344004071 beta-phosphoglucomutase; Region: bPGM; TIGR01990 387344004072 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387344004073 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 387344004074 motif II; other site 387344004075 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 387344004076 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 387344004077 active site 387344004078 motif I; other site 387344004079 motif II; other site 387344004080 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387344004081 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 387344004082 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 387344004083 Substrate-binding site [chemical binding]; other site 387344004084 Substrate specificity [chemical binding]; other site 387344004085 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 387344004086 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 387344004087 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 387344004088 putative substrate translocation pore; other site 387344004089 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 387344004090 S-adenosylmethionine synthetase; Validated; Region: PRK05250 387344004091 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 387344004092 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 387344004093 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 387344004094 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 387344004095 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 387344004096 active site 387344004097 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 387344004098 Ligand Binding Site [chemical binding]; other site 387344004099 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 387344004100 Sulfatase; Region: Sulfatase; cl10460 387344004101 Protein of unknown function (DUF1797); Region: DUF1797; cl11550 387344004102 Predicted integral membrane protein [Function unknown]; Region: COG0392 387344004103 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 387344004104 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 387344004105 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 387344004106 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 387344004107 putative ADP-binding pocket [chemical binding]; other site 387344004108 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 387344004109 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 387344004110 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 387344004111 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 387344004112 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 387344004113 dimerization domain swap beta strand [polypeptide binding]; other site 387344004114 regulatory protein interface [polypeptide binding]; other site 387344004115 active site 387344004116 regulatory phosphorylation site [posttranslational modification]; other site 387344004117 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 387344004118 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 387344004119 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 387344004120 Walker A motif; other site 387344004121 ATP binding site [chemical binding]; other site 387344004122 Walker B motif; other site 387344004123 arginine finger; other site 387344004124 endopeptidase Clp ATP-binding regulatory subunit (clpX); Region: clpX; TIGR00382 387344004125 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 387344004126 Walker A motif; other site 387344004127 ATP binding site [chemical binding]; other site 387344004128 Walker B motif; other site 387344004129 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 387344004130 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 387344004131 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 387344004132 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 387344004133 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 387344004134 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 387344004135 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 387344004136 motif II; other site 387344004137 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 387344004138 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 387344004139 Peptidase family C69; Region: Peptidase_C69; pfam03577 387344004140 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 387344004141 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 387344004142 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 387344004143 legume lectins; Region: lectin_L-type; cd01951 387344004144 homotetramer interaction site [polypeptide binding]; other site 387344004145 carbohydrate binding site [chemical binding]; other site 387344004146 metal binding site [ion binding]; metal-binding site 387344004147 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 387344004148 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 387344004149 G1 box; other site 387344004150 putative GEF interaction site [polypeptide binding]; other site 387344004151 GTP/Mg2+ binding site [chemical binding]; other site 387344004152 Switch I region; other site 387344004153 G2 box; other site 387344004154 G3 box; other site 387344004155 Switch II region; other site 387344004156 G4 box; other site 387344004157 G5 box; other site 387344004158 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 387344004159 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 387344004160 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 387344004161 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 387344004162 active site 387344004163 nucleotide binding site [chemical binding]; other site 387344004164 HIGH motif; other site 387344004165 KMSKS motif; other site 387344004166 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 387344004167 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 387344004168 Protein of unknown function (DUF402); Region: DUF402; cl00979 387344004169 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 387344004170 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 387344004171 RecX family; Region: RecX; cl00936 387344004172 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 387344004173 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 387344004174 Restriction endonuclease; Region: Mrr_cat; cl00516 387344004175 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 387344004176 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 387344004177 active site 387344004178 homodimer interface [polypeptide binding]; other site 387344004179 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 387344004180 Putative Catalytic site; other site 387344004181 DXD motif; other site 387344004182 GntP family permease; Region: GntP_permease; pfam02447 387344004183 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 387344004184 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 387344004185 Ligand Binding Site [chemical binding]; other site 387344004186 DEAD-like helicases superfamily; Region: DEXDc; smart00487 387344004187 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344004188 ATP binding site [chemical binding]; other site 387344004189 putative Mg++ binding site [ion binding]; other site 387344004190 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 387344004191 nucleotide binding region [chemical binding]; other site 387344004192 ATP-binding site [chemical binding]; other site 387344004193 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 387344004194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344004195 EIAV coat protein, gp90; Region: EIAV_GP90; pfam00971 387344004196 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_2; cd06419 387344004197 active site 387344004198 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 387344004199 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 387344004200 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 387344004201 putative active site [active] 387344004202 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 387344004203 gluconate kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 387344004204 N- and C-terminal domain interface [polypeptide binding]; other site 387344004205 putative active site [active] 387344004206 catalytic site [active] 387344004207 metal binding site [ion binding]; metal-binding site 387344004208 carbohydrate binding site [chemical binding]; other site 387344004209 ATP binding site [chemical binding]; other site 387344004210 GntP family permease; Region: GntP_permease; pfam02447 387344004211 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 387344004212 Amino acid permease; Region: AA_permease_2; pfam13520 387344004213 Spore germination protein; Region: Spore_permease; cl15802 387344004214 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 387344004215 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 387344004216 putative substrate translocation pore; other site 387344004217 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 387344004218 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 387344004219 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl15791 387344004220 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 387344004221 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 387344004222 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 387344004223 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 387344004224 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 387344004225 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 387344004226 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 387344004227 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 387344004228 Sulfatase; Region: Sulfatase; cl10460 387344004229 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 387344004230 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 387344004231 intersubunit interface [polypeptide binding]; other site 387344004232 active site 387344004233 catalytic residue [active] 387344004234 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 387344004235 non-specific DNA binding site [nucleotide binding]; other site 387344004236 salt bridge; other site 387344004237 sequence-specific DNA binding site [nucleotide binding]; other site 387344004238 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 387344004239 sequence-specific DNA binding site [nucleotide binding]; other site 387344004240 salt bridge; other site 387344004241 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 387344004242 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 387344004243 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 387344004244 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 387344004245 putative active site [active] 387344004246 putative FMN binding site [chemical binding]; other site 387344004247 putative substrate binding site [chemical binding]; other site 387344004248 putative catalytic residue [active] 387344004249 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 387344004250 putative hexamer interface [polypeptide binding]; other site 387344004251 putative hexagonal pore; other site 387344004252 Acetokinase family; Region: Acetate_kinase; cl01029 387344004253 propionate/acetate kinase; Provisional; Region: PRK12379 387344004254 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 387344004255 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 387344004256 putative active site [active] 387344004257 metal binding site [ion binding]; metal-binding site 387344004258 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 387344004259 putative catalytic cysteine [active] 387344004260 Domain of unknown function (DUF336); Region: DUF336; cl01249 387344004261 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 387344004262 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 387344004263 Hexamer/Pentamer interface [polypeptide binding]; other site 387344004264 central pore; other site 387344004265 putative propanediol utilization protein PduM; Provisional; Region: PRK15428 387344004266 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 387344004267 Propanediol utilisation protein PduL; Region: PduL; pfam06130 387344004268 Propanediol utilisation protein PduL; Region: PduL; pfam06130 387344004269 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 387344004270 Hexamer interface [polypeptide binding]; other site 387344004271 Hexagonal pore residue; other site 387344004272 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 387344004273 1,2-propanediol utilization protein K (PduK), Bacterial Micro-Compartment (BMC) domain repeat 1l; Region: BMC_PduK; cd07056 387344004274 putative hexamer interface [polypeptide binding]; other site 387344004275 putative hexagonal pore; other site 387344004276 Dehydratase medium subunit; Region: Dehydratase_MU; pfam02288 387344004277 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 387344004278 Dehydratase small subunit; Region: Dehydratase_SU; cl02055 387344004279 propanediol dehydratase medium subunit; Provisional; Region: pduD; PRK15042 387344004280 Dehydratase medium subunit; Region: Dehydratase_MU; pfam02288 387344004281 Dehydratase large subunit. This family contains the large (alpha) subunit of B12-dependent glycerol dehydratases (GDHs) and B12-dependent diol dehydratases (DDHs). GDH is isofunctional with DDH. These enzymes can each catalyze the conversion of 1; Region: Dehydratase_LU; cd03687 387344004282 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 387344004283 alpha-beta subunit interface [polypeptide binding]; other site 387344004284 alpha-gamma subunit interface [polypeptide binding]; other site 387344004285 active site 387344004286 substrate and K+ binding site; other site 387344004287 K+ binding site [ion binding]; other site 387344004288 cobalamin binding site [chemical binding]; other site 387344004289 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 387344004290 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutL; COG4816 387344004291 putative hexamer interface [polypeptide binding]; other site 387344004292 putative hexagonal pore; other site 387344004293 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 387344004294 putative hexamer interface [polypeptide binding]; other site 387344004295 putative hexagonal pore; other site 387344004296 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 387344004297 Hexamer interface [polypeptide binding]; other site 387344004298 Putative hexagonal pore residue; other site 387344004299 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 387344004300 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 387344004301 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 387344004302 amphipathic channel; other site 387344004303 Asn-Pro-Ala signature motifs; other site 387344004304 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 387344004305 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344004306 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 387344004307 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344004308 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344004309 Helix-turn-helix domains; Region: HTH; cl00088 387344004310 Integrase core domain; Region: rve; cl01316 387344004311 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344004312 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344004313 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 387344004314 TRAM domain; Region: TRAM; cl01282 387344004315 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 387344004316 S-adenosylmethionine binding site [chemical binding]; other site 387344004317 putative lipid kinase; Reviewed; Region: PRK13055 387344004318 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 387344004319 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 387344004320 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 387344004321 GatB domain; Region: GatB_Yqey; cl11497 387344004322 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 387344004323 Amidase; Region: Amidase; cl11426 387344004324 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 387344004325 CamS sex pheromone cAM373 precursor; Region: CamS; cl11554 387344004326 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 387344004327 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 387344004328 nucleotide binding pocket [chemical binding]; other site 387344004329 K-X-D-G motif; other site 387344004330 catalytic site [active] 387344004331 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 387344004332 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 387344004333 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 387344004334 Dimer interface [polypeptide binding]; other site 387344004335 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 387344004336 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344004337 Family description; Region: UvrD_C_2; cl15862 387344004338 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 387344004339 ATP-grasp domain; Region: ATP-grasp_4; cl03087 387344004340 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 387344004341 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 387344004342 active site 387344004343 UbiA prenyltransferase family; Region: UbiA; cl00337 387344004344 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 387344004345 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 387344004346 substrate binding pocket [chemical binding]; other site 387344004347 chain length determination region; other site 387344004348 substrate-Mg2+ binding site; other site 387344004349 catalytic residues [active] 387344004350 aspartate-rich region 1; other site 387344004351 active site lid residues [active] 387344004352 aspartate-rich region 2; other site 387344004353 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 387344004354 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 387344004355 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 387344004356 Walker A/P-loop; other site 387344004357 ATP binding site [chemical binding]; other site 387344004358 Q-loop/lid; other site 387344004359 ABC transporter signature motif; other site 387344004360 Walker B; other site 387344004361 D-loop; other site 387344004362 H-loop/switch region; other site 387344004363 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 387344004364 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 387344004365 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 387344004366 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 387344004367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344004368 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 387344004369 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 387344004370 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 387344004371 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344004372 Helix-turn-helix domains; Region: HTH; cl00088 387344004373 Integrase core domain; Region: rve; cl01316 387344004374 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 387344004375 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 387344004376 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 387344004377 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 387344004378 amino acid transporter; Region: 2A0306; TIGR00909 387344004379 Spore germination protein; Region: Spore_permease; cl15802 387344004380 Spore germination protein; Region: Spore_permease; cl15802 387344004381 Spore germination protein; Region: Spore_permease; cl15802 387344004382 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 387344004383 dimer interface [polypeptide binding]; other site 387344004384 active site 387344004385 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 387344004386 homopentamer interface [polypeptide binding]; other site 387344004387 active site 387344004388 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 387344004389 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 387344004390 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 387344004391 dimerization interface [polypeptide binding]; other site 387344004392 active site 387344004393 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 387344004394 Lumazine binding domain; Region: Lum_binding; pfam00677 387344004395 Lumazine binding domain; Region: Lum_binding; pfam00677 387344004396 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 387344004397 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 387344004398 catalytic motif [active] 387344004399 Zn binding site [ion binding]; other site 387344004400 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 387344004401 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 387344004402 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344004403 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; cl15357 387344004404 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 387344004405 Cation transport protein; Region: TrkH; cl10514 387344004406 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 387344004407 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 387344004408 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 387344004409 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 387344004410 23S rRNA interface [nucleotide binding]; other site 387344004411 L3 interface [polypeptide binding]; other site 387344004412 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 387344004413 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 387344004414 dimerization interface 3.5A [polypeptide binding]; other site 387344004415 active site 387344004416 Cobalt transport protein; Region: CbiQ; cl00463 387344004417 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 387344004418 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 ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 387344004419 Walker A/P-loop; other site 387344004420 ATP binding site [chemical binding]; other site 387344004421 Q-loop/lid; other site 387344004422 ABC transporter signature motif; other site 387344004423 Walker B; other site 387344004424 D-loop; other site 387344004425 H-loop/switch region; other site 387344004426 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 387344004427 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 ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 387344004428 Walker A/P-loop; other site 387344004429 ATP binding site [chemical binding]; other site 387344004430 Q-loop/lid; other site 387344004431 ABC transporter signature motif; other site 387344004432 Walker B; other site 387344004433 D-loop; other site 387344004434 H-loop/switch region; other site 387344004435 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 387344004436 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 387344004437 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 387344004438 alphaNTD homodimer interface [polypeptide binding]; other site 387344004439 alphaNTD - beta interaction site [polypeptide binding]; other site 387344004440 alphaNTD - beta' interaction site [polypeptide binding]; other site 387344004441 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 387344004442 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 387344004443 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 387344004444 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 387344004445 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 387344004446 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 387344004447 rRNA binding site [nucleotide binding]; other site 387344004448 predicted 30S ribosome binding site; other site 387344004449 adenylate kinase; Reviewed; Region: adk; PRK00279 387344004450 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 387344004451 AMP-binding site [chemical binding]; other site 387344004452 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 387344004453 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 387344004454 SecY translocase; Region: SecY; pfam00344 387344004455 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 387344004456 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 387344004457 23S rRNA binding site [nucleotide binding]; other site 387344004458 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 387344004459 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 387344004460 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 387344004461 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 387344004462 5S rRNA interface [nucleotide binding]; other site 387344004463 L27 interface [polypeptide binding]; other site 387344004464 23S rRNA interface [nucleotide binding]; other site 387344004465 L5 interface [polypeptide binding]; other site 387344004466 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 387344004467 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 387344004468 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 387344004469 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 387344004470 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 387344004471 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 387344004472 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 387344004473 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 387344004474 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 387344004475 KOW motif; Region: KOW; cl00354 387344004476 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 387344004477 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 387344004478 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 387344004479 23S rRNA interface [nucleotide binding]; other site 387344004480 putative translocon interaction site; other site 387344004481 signal recognition particle (SRP54) interaction site; other site 387344004482 L23 interface [polypeptide binding]; other site 387344004483 trigger factor interaction site; other site 387344004484 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 387344004485 23S rRNA interface [nucleotide binding]; other site 387344004486 5S rRNA interface [nucleotide binding]; other site 387344004487 putative antibiotic binding site [chemical binding]; other site 387344004488 L25 interface [polypeptide binding]; other site 387344004489 L27 interface [polypeptide binding]; other site 387344004490 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 387344004491 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 387344004492 G-X-X-G motif; other site 387344004493 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 387344004494 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 387344004495 putative translocon binding site; other site 387344004496 protein-rRNA interface [nucleotide binding]; other site 387344004497 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 387344004498 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 387344004499 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 387344004500 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 387344004501 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 387344004502 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 387344004503 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 387344004504 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 387344004505 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 387344004506 MatE; Region: MatE; cl10513 387344004507 elongation factor G; Reviewed; Region: PRK12739 387344004508 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 387344004509 G1 box; other site 387344004510 putative GEF interaction site [polypeptide binding]; other site 387344004511 GTP/Mg2+ binding site [chemical binding]; other site 387344004512 Switch I region; other site 387344004513 G2 box; other site 387344004514 G3 box; other site 387344004515 Switch II region; other site 387344004516 G4 box; other site 387344004517 G5 box; other site 387344004518 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 387344004519 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 387344004520 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 387344004521 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 387344004522 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 387344004523 16S rRNA interaction site [nucleotide binding]; other site 387344004524 streptomycin interaction site [chemical binding]; other site 387344004525 23S rRNA interaction site [nucleotide binding]; other site 387344004526 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 387344004527 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 387344004528 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 387344004529 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 387344004530 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 387344004531 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 387344004532 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 387344004533 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 387344004534 cleft; other site 387344004535 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 387344004536 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 387344004537 DNA binding site [nucleotide binding] 387344004538 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 387344004539 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 387344004540 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 387344004541 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 387344004542 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 387344004543 RPB1 interaction site [polypeptide binding]; other site 387344004544 RPB10 interaction site [polypeptide binding]; other site 387344004545 RPB11 interaction site [polypeptide binding]; other site 387344004546 RPB3 interaction site [polypeptide binding]; other site 387344004547 RPB12 interaction site [polypeptide binding]; other site 387344004548 Helix-turn-helix domains; Region: HTH; cl00088 387344004549 Clp protease ATP binding subunit; Region: clpC; CHL00095 387344004550 Clp amino terminal domain; Region: Clp_N; pfam02861 387344004551 Clp amino terminal domain; Region: Clp_N; pfam02861 387344004552 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 387344004553 Walker A motif; other site 387344004554 ATP binding site [chemical binding]; other site 387344004555 Walker B motif; other site 387344004556 arginine finger; other site 387344004557 UvrB/uvrC motif; Region: UVR; pfam02151 387344004558 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 387344004559 Walker A motif; other site 387344004560 ATP binding site [chemical binding]; other site 387344004561 Walker B motif; other site 387344004562 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 387344004563 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 387344004564 seryl-tRNA synthetase; Provisional; Region: PRK05431 387344004565 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 387344004566 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 bound...; Region: SerRS_core; cd00770 387344004567 dimer interface [polypeptide binding]; other site 387344004568 active site 387344004569 motif 1; other site 387344004570 motif 2; other site 387344004571 motif 3; other site 387344004572 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 387344004573 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 387344004574 Substrate-binding site [chemical binding]; other site 387344004575 Substrate specificity [chemical binding]; other site 387344004576 lysine transporter; Provisional; Region: PRK10836 387344004577 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 387344004578 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 387344004579 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 387344004580 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 387344004581 active site 387344004582 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 387344004583 Uncharacterized conserved protein [Function unknown]; Region: COG2966 387344004584 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 387344004585 Helix-turn-helix domains; Region: HTH; cl00088 387344004586 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 387344004587 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 387344004588 FeoA domain; Region: FeoA; cl00838 387344004589 Cation efflux family; Region: Cation_efflux; cl00316 387344004590 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 387344004591 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 387344004592 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344004593 Helix-turn-helix domains; Region: HTH; cl00088 387344004594 Helix-turn-helix domains; Region: HTH; cl00088 387344004595 Integrase core domain; Region: rve; cl01316 387344004596 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 387344004597 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 387344004598 DNA binding residues [nucleotide binding] 387344004599 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 387344004600 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 387344004601 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 387344004602 putative substrate translocation pore; other site 387344004603 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 387344004604 DNA binding residues [nucleotide binding] 387344004605 putative dimer interface [polypeptide binding]; other site 387344004606 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344004607 Helix-turn-helix domains; Region: HTH; cl00088 387344004608 Helix-turn-helix domains; Region: HTH; cl00088 387344004609 Integrase core domain; Region: rve; cl01316 387344004610 AzlC protein; Region: AzlC; cl00570 387344004611 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 387344004612 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 387344004613 uracil transporter; Provisional; Region: PRK10720 387344004614 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 387344004615 H+ Antiporter protein; Region: 2A0121; TIGR00900 387344004616 putative substrate translocation pore; other site 387344004617 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 387344004618 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 387344004619 Coenzyme A binding pocket [chemical binding]; other site 387344004620 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 387344004621 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 387344004622 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 387344004623 Coenzyme A binding pocket [chemical binding]; other site 387344004624 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 387344004625 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 387344004626 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 and...; Region: PseudoU_synth_RluCD_like; cd02869 387344004627 active site 387344004628 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387344004629 lipoyl-biotinyl attachment site [posttranslational modification]; other site 387344004630 maltose O-acetyltransferase; Provisional; Region: PRK10092 387344004631 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 387344004632 active site 387344004633 substrate binding site [chemical binding]; other site 387344004634 trimer interface [polypeptide binding]; other site 387344004635 CoA binding site [chemical binding]; other site 387344004636 L-arabinose isomerase; Provisional; Region: PRK02929 387344004637 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 387344004638 hexamer (dimer of trimers) interface [polypeptide binding]; other site 387344004639 substrate binding site [chemical binding]; other site 387344004640 trimer interface [polypeptide binding]; other site 387344004641 Mn binding site [ion binding]; other site 387344004642 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 387344004643 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 387344004644 intersubunit interface [polypeptide binding]; other site 387344004645 active site 387344004646 Zn2+ binding site [ion binding]; other site 387344004647 L-ribulokinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 387344004648 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 387344004649 putative N- and C-terminal domain interface [polypeptide binding]; other site 387344004650 putative active site [active] 387344004651 putative MgATP binding site [chemical binding]; other site 387344004652 catalytic site [active] 387344004653 metal binding site [ion binding]; metal-binding site 387344004654 putative carbohydrate binding site [chemical binding]; other site 387344004655 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 387344004656 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 387344004657 putative substrate translocation pore; other site 387344004658 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 387344004659 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 387344004660 DNA-binding site [nucleotide binding]; DNA binding site 387344004661 Transcriptional regulators [Transcription]; Region: PurR; COG1609 387344004662 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 387344004663 putative dimerization interface [polypeptide binding]; other site 387344004664 putative ligand binding site [chemical binding]; other site 387344004665 maltose O-acetyltransferase; Provisional; Region: PRK10092 387344004666 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 387344004667 active site 387344004668 substrate binding site [chemical binding]; other site 387344004669 trimer interface [polypeptide binding]; other site 387344004670 CoA binding site [chemical binding]; other site 387344004671 Predicted transcriptional regulator [Transcription]; Region: COG4189 387344004672 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 387344004673 putative DNA binding site [nucleotide binding]; other site 387344004674 dimerization interface [polypeptide binding]; other site 387344004675 putative Zn2+ binding site [ion binding]; other site 387344004676 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344004677 Helix-turn-helix domains; Region: HTH; cl00088 387344004678 Integrase core domain; Region: rve; cl01316 387344004679 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 387344004680 active site 387344004681 galactoside permease; Reviewed; Region: lacY; PRK09528 387344004682 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 387344004683 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 387344004684 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 387344004685 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 387344004686 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 387344004687 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 387344004688 ATP binding site [chemical binding]; other site 387344004689 putative Mg++ binding site [ion binding]; other site 387344004690 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 387344004691 nucleotide binding region [chemical binding]; other site 387344004692 ATP-binding site [chemical binding]; other site 387344004693 RQC domain; Region: RQC; cl09632 387344004694 HRDC domain; Region: HRDC; cl02578 387344004695 Helix-turn-helix domains; Region: HTH; cl00088 387344004696 Rrf2 family protein; Region: rrf2_super; TIGR00738 387344004697 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 387344004698 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344004699 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344004700 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 387344004701 Peptidase family C69; Region: Peptidase_C69; pfam03577 387344004702 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 387344004703 Peptidase family M1; Region: Peptidase_M1; pfam01433 387344004704 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 387344004705 Zn binding site [ion binding]; other site 387344004706 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 387344004707 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 387344004708 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-glucosyltransferase; Region: GH31; cl11402 387344004709 GMP synthase; Reviewed; Region: guaA; PRK00074 387344004710 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 387344004711 AMP/PPi binding site [chemical binding]; other site 387344004712 candidate oxyanion hole; other site 387344004713 catalytic triad [active] 387344004714 potential glutamine specificity residues [chemical binding]; other site 387344004715 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 387344004716 ATP Binding subdomain [chemical binding]; other site 387344004717 Dimerization subdomain; other site 387344004718 pantothenate kinase; Provisional; Region: PRK05439 387344004719 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 387344004720 ATP-binding site [chemical binding]; other site 387344004721 CoA-binding site [chemical binding]; other site 387344004722 Mg2+-binding site [ion binding]; other site 387344004723 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 387344004724 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344004725 Family description; Region: UvrD_C_2; cl15862 387344004726 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 387344004727 catalytic core [active] 387344004728 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 387344004729 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 387344004730 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 387344004731 Walker A/P-loop; other site 387344004732 ATP binding site [chemical binding]; other site 387344004733 Q-loop/lid; other site 387344004734 ABC transporter signature motif; other site 387344004735 Walker B; other site 387344004736 D-loop; other site 387344004737 H-loop/switch region; other site 387344004738 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 387344004739 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 387344004740 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 387344004741 Walker A/P-loop; other site 387344004742 ATP binding site [chemical binding]; other site 387344004743 Q-loop/lid; other site 387344004744 ABC transporter signature motif; other site 387344004745 Walker B; other site 387344004746 D-loop; other site 387344004747 H-loop/switch region; other site 387344004748 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 387344004749 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 387344004750 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 387344004751 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 387344004752 dimer interface [polypeptide binding]; other site 387344004753 conserved gate region; other site 387344004754 putative PBP binding loops; other site 387344004755 ABC-ATPase subunit interface; other site 387344004756 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 387344004757 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 387344004758 dimer interface [polypeptide binding]; other site 387344004759 conserved gate region; other site 387344004760 putative PBP binding loops; other site 387344004761 ABC-ATPase subunit interface; other site 387344004762 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 387344004763 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 387344004764 peptide binding site [polypeptide binding]; other site 387344004765 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 387344004766 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 387344004767 peptide binding site [polypeptide binding]; other site 387344004768 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 387344004769 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 387344004770 HflX GTPase family; Region: HflX; cd01878 387344004771 G1 box; other site 387344004772 GTP/Mg2+ binding site [chemical binding]; other site 387344004773 Switch I region; other site 387344004774 G2 box; other site 387344004775 G3 box; other site 387344004776 Switch II region; other site 387344004777 G4 box; other site 387344004778 G5 box; other site 387344004779 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 387344004780 dimer interface [polypeptide binding]; other site 387344004781 conserved gate region; other site 387344004782 putative PBP binding loops; other site 387344004783 ABC-ATPase subunit interface; other site 387344004784 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 387344004785 dimer interface [polypeptide binding]; other site 387344004786 conserved gate region; other site 387344004787 putative PBP binding loops; other site 387344004788 ABC-ATPase subunit interface; other site 387344004789 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 387344004790 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 387344004791 substrate binding pocket [chemical binding]; other site 387344004792 membrane-bound complex binding site; other site 387344004793 hinge residues; other site 387344004794 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 387344004795 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. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 387344004796 Walker A/P-loop; other site 387344004797 ATP binding site [chemical binding]; other site 387344004798 Q-loop/lid; other site 387344004799 ABC transporter signature motif; other site 387344004800 Walker B; other site 387344004801 D-loop; other site 387344004802 H-loop/switch region; other site 387344004803 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 387344004804 metal binding site 2 [ion binding]; metal-binding site 387344004805 putative DNA binding helix; other site 387344004806 metal binding site 1 [ion binding]; metal-binding site 387344004807 dimer interface [polypeptide binding]; other site 387344004808 structural Zn2+ binding site [ion binding]; other site 387344004809 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 387344004810 active site 387344004811 Ap4A binding cleft/pocket [chemical binding]; other site 387344004812 P4 phosphate binding site; other site 387344004813 nudix motif; other site 387344004814 putative P2/P3 phosphate binding site [ion binding]; other site 387344004815 amino acid transporter; Region: 2A0306; TIGR00909 387344004816 Spore germination protein; Region: Spore_permease; cl15802 387344004817 Spore germination protein; Region: Spore_permease; cl15802 387344004818 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 387344004819 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; cl07696 387344004820 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 387344004821 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 387344004822 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 387344004823 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 387344004824 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344004825 Walker A/P-loop; other site 387344004826 ATP binding site [chemical binding]; other site 387344004827 Q-loop/lid; other site 387344004828 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 facilitated...; Region: ABCF_EF-3; cd03221 387344004829 ABC transporter signature motif; other site 387344004830 Walker B; other site 387344004831 D-loop; other site 387344004832 ABC transporter; Region: ABC_tran_2; pfam12848 387344004833 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 facilitated...; Region: ABCF_EF-3; cd03221 387344004834 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 387344004835 dimer interface [polypeptide binding]; other site 387344004836 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 387344004837 metal binding site [ion binding]; metal-binding site 387344004838 CAAX protease self-immunity; Region: Abi; cl00558 387344004839 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 387344004840 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 387344004841 Walker A/P-loop; other site 387344004842 ATP binding site [chemical binding]; other site 387344004843 Q-loop/lid; other site 387344004844 ABC transporter signature motif; other site 387344004845 Walker B; other site 387344004846 D-loop; other site 387344004847 H-loop/switch region; other site 387344004848 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 387344004849 TM-ABC transporter signature motif; other site 387344004850 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 387344004851 zinc binding site [ion binding]; other site 387344004852 putative ligand binding site [chemical binding]; other site 387344004853 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 387344004854 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 387344004855 zinc binding site [ion binding]; other site 387344004856 putative ligand binding site [chemical binding]; other site 387344004857 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 387344004858 TM-ABC transporter signature motif; other site 387344004859 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 387344004860 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344004861 Walker A/P-loop; other site 387344004862 ATP binding site [chemical binding]; other site 387344004863 Q-loop/lid; other site 387344004864 ABC transporter signature motif; other site 387344004865 Walker B; other site 387344004866 D-loop; other site 387344004867 H-loop/switch region; other site 387344004868 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344004869 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 387344004870 Integral membrane protein TerC family; Region: TerC; cl10468 387344004871 SH3-like domain; Region: SH3_8; pfam13457 387344004872 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 387344004873 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 387344004874 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 387344004875 putative active site [active] 387344004876 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 387344004877 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 387344004878 active site 387344004879 acetoin reductases; Region: 23BDH; TIGR02415 387344004880 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344004881 NAD(P) binding site [chemical binding]; other site 387344004882 active site 387344004883 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 387344004884 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 387344004885 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344004886 Helix-turn-helix domains; Region: HTH; cl00088 387344004887 Helix-turn-helix domains; Region: HTH; cl00088 387344004888 Integrase core domain; Region: rve; cl01316 387344004889 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 387344004890 Major Facilitator Superfamily; Region: MFS_1; pfam07690 387344004891 putative substrate translocation pore; other site 387344004892 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 387344004893 Helix-turn-helix domains; Region: HTH; cl00088 387344004894 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 387344004895 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 387344004896 DNA binding residues [nucleotide binding] 387344004897 putative dimer interface [polypeptide binding]; other site 387344004898 NlpC/P60 family; Region: NLPC_P60; cl11438 387344004899 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 387344004900 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 387344004901 catalytic core [active] 387344004902 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 387344004903 Sulfatase; Region: Sulfatase; cl10460 387344004904 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 387344004905 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344004906 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 387344004907 Protease prsW family; Region: PrsW-protease; cl15823 387344004908 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 387344004909 active site 387344004910 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 387344004911 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 387344004912 active site 387344004913 motif I; other site 387344004914 motif II; other site 387344004915 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387344004916 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 387344004917 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 387344004918 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 387344004919 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; cl01589 387344004920 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 387344004921 GIY-YIG motif/motif A; other site 387344004922 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 387344004923 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 387344004924 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 387344004925 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 387344004926 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 387344004927 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 387344004928 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 387344004929 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 ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 387344004930 Walker A/P-loop; other site 387344004931 ATP binding site [chemical binding]; other site 387344004932 Q-loop/lid; other site 387344004933 ABC transporter signature motif; other site 387344004934 Walker B; other site 387344004935 D-loop; other site 387344004936 H-loop/switch region; other site 387344004937 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 ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 387344004938 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 387344004939 Walker A/P-loop; other site 387344004940 ATP binding site [chemical binding]; other site 387344004941 Q-loop/lid; other site 387344004942 ABC transporter signature motif; other site 387344004943 Walker B; other site 387344004944 D-loop; other site 387344004945 H-loop/switch region; other site 387344004946 Cobalt transport protein; Region: CbiQ; cl00463 387344004947 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 387344004948 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 387344004949 active site 387344004950 homotetramer interface [polypeptide binding]; other site 387344004951 homodimer interface [polypeptide binding]; other site 387344004952 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 387344004953 xanthine permease; Region: pbuX; TIGR03173 387344004954 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 387344004955 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344004956 Walker A/P-loop; other site 387344004957 ATP binding site [chemical binding]; other site 387344004958 Q-loop/lid; other site 387344004959 ABC transporter signature motif; other site 387344004960 Walker B; other site 387344004961 D-loop; other site 387344004962 H-loop/switch region; other site 387344004963 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 387344004964 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 387344004965 Uncharacterized conserved protein [Function unknown]; Region: COG2966 387344004966 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 387344004967 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 387344004968 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 387344004969 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 387344004970 active site 387344004971 catalytic tetrad [active] 387344004972 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 387344004973 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; cl12126 387344004974 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 387344004975 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 387344004976 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 387344004977 catalytic residue [active] 387344004978 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 387344004979 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 387344004980 ligand binding site [chemical binding]; other site 387344004981 flexible hinge region; other site 387344004982 Helix-turn-helix domains; Region: HTH; cl00088 387344004983 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 387344004984 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 387344004985 AIR carboxylase; Region: AIRC; cl00310 387344004986 Protein of unknown function DUF111; Region: DUF111; cl03398 387344004987 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 387344004988 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 387344004989 Ligand Binding Site [chemical binding]; other site 387344004990 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 387344004991 amphipathic channel; other site 387344004992 Asn-Pro-Ala signature motifs; other site 387344004993 High-affinity nickel-transport protein; Region: NicO; cl00964 387344004994 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 387344004995 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 387344004996 Walker A/P-loop; other site 387344004997 ATP binding site [chemical binding]; other site 387344004998 Q-loop/lid; other site 387344004999 ABC transporter signature motif; other site 387344005000 Walker B; other site 387344005001 D-loop; other site 387344005002 H-loop/switch region; other site 387344005003 TOBE domain; Region: TOBE_2; cl01440 387344005004 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 387344005005 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 387344005006 dimer interface [polypeptide binding]; other site 387344005007 conserved gate region; other site 387344005008 putative PBP binding loops; other site 387344005009 ABC-ATPase subunit interface; other site 387344005010 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 387344005011 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 387344005012 dimer interface [polypeptide binding]; other site 387344005013 conserved gate region; other site 387344005014 putative PBP binding loops; other site 387344005015 ABC-ATPase subunit interface; other site 387344005016 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 387344005017 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 387344005018 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 387344005019 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 387344005020 Walker A/P-loop; other site 387344005021 ATP binding site [chemical binding]; other site 387344005022 Q-loop/lid; other site 387344005023 ABC transporter signature motif; other site 387344005024 Walker B; other site 387344005025 D-loop; other site 387344005026 H-loop/switch region; other site 387344005027 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 387344005028 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 387344005029 dimer interface [polypeptide binding]; other site 387344005030 conserved gate region; other site 387344005031 putative PBP binding loops; other site 387344005032 ABC-ATPase subunit interface; other site 387344005033 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 387344005034 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 387344005035 dimer interface [polypeptide binding]; other site 387344005036 conserved gate region; other site 387344005037 putative PBP binding loops; other site 387344005038 ABC-ATPase subunit interface; other site 387344005039 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 387344005040 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; cl00206 387344005041 regulatory protein interface [polypeptide binding]; other site 387344005042 regulatory phosphorylation site [posttranslational modification]; other site 387344005043 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 387344005044 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344005045 DEAD_2; Region: DEAD_2; pfam06733 387344005046 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344005047 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 387344005048 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344005049 Walker A/P-loop; other site 387344005050 ATP binding site [chemical binding]; other site 387344005051 Q-loop/lid; other site 387344005052 ABC transporter signature motif; other site 387344005053 Walker B; other site 387344005054 D-loop; other site 387344005055 H-loop/switch region; other site 387344005056 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344005057 Helix-turn-helix domains; Region: HTH; cl00088 387344005058 Integrase core domain; Region: rve; cl01316 387344005059 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 387344005060 active site 387344005061 ATP binding site [chemical binding]; other site 387344005062 substrate binding site [chemical binding]; other site 387344005063 activation loop (A-loop); other site 387344005064 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cd04434 387344005065 active site 387344005066 zinc binding site [ion binding]; other site 387344005067 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 387344005068 amino acid transporter; Region: 2A0306; TIGR00909 387344005069 Spore germination protein; Region: Spore_permease; cl15802 387344005070 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 387344005071 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 387344005072 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 387344005073 metal binding site 2 [ion binding]; metal-binding site 387344005074 putative DNA binding helix; other site 387344005075 metal binding site 1 [ion binding]; metal-binding site 387344005076 dimer interface [polypeptide binding]; other site 387344005077 structural Zn2+ binding site [ion binding]; other site 387344005078 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 387344005079 amidase catalytic site [active] 387344005080 Zn binding residues [ion binding]; other site 387344005081 substrate binding site [chemical binding]; other site 387344005082 YibE/F-like protein; Region: YibE_F; cl02259 387344005083 YibE/F-like protein; Region: YibE_F; cl02259 387344005084 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 387344005085 Ligand Binding Site [chemical binding]; other site 387344005086 Transcriptional regulators [Transcription]; Region: MarR; COG1846 387344005087 Helix-turn-helix domains; Region: HTH; cl00088 387344005088 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 387344005089 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 387344005090 active site 387344005091 Zn binding site [ion binding]; other site 387344005092 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 387344005093 ribonucleoside-triphosphate reductase, adenosylcobalamin-dependent; Region: RTPR; TIGR02505 387344005094 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 387344005095 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 387344005096 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 387344005097 DNA binding site [nucleotide binding] 387344005098 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 387344005099 putative dimerization interface [polypeptide binding]; other site 387344005100 putative ligand binding site [chemical binding]; other site 387344005101 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 387344005102 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 basis...; Region: HIT_like; cl00228 387344005103 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 basis...; Region: HIT_like; cl00228 387344005104 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 387344005105 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 387344005106 NAD binding site [chemical binding]; other site 387344005107 homodimer interface [polypeptide binding]; other site 387344005108 active site 387344005109 substrate binding site [chemical binding]; other site 387344005110 galactokinase; Provisional; Region: PRK05322 387344005111 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 387344005112 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 387344005113 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 387344005114 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 387344005115 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 387344005116 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 387344005117 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 387344005118 active site 387344005119 substrate binding site [chemical binding]; other site 387344005120 metal binding site [ion binding]; metal-binding site 387344005121 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 387344005122 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 387344005123 active site 387344005124 catalytic residues [active] 387344005125 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 387344005126 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 387344005127 active site 387344005128 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 387344005129 Ligand binding site [chemical binding]; other site 387344005130 Electron transfer flavoprotein domain; Region: ETF; pfam01012 387344005131 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 387344005132 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 387344005133 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 387344005134 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 387344005135 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 387344005136 putative NAD(P) binding site [chemical binding]; other site 387344005137 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 387344005138 putative DNA binding site [nucleotide binding]; other site 387344005139 putative Zn2+ binding site [ion binding]; other site 387344005140 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 387344005141 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 387344005142 potential catalytic triad [active] 387344005143 conserved cys residue [active] 387344005144 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 387344005145 active site 387344005146 metal-binding site [ion binding] 387344005147 nucleotide-binding site [chemical binding]; other site 387344005148 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 387344005149 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 387344005150 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 387344005151 putative substrate translocation pore; other site 387344005152 methionine aminopeptidase; Provisional; Region: PRK08671 387344005153 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 387344005154 active site 387344005155 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 387344005156 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 387344005157 S-adenosylmethionine binding site [chemical binding]; other site 387344005158 Transposase domain (DUF772); Region: DUF772; cl15789 387344005159 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 387344005160 Transposase domain (DUF772); Region: DUF772; cl15789 387344005161 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 387344005162 non-specific DNA binding site [nucleotide binding]; other site 387344005163 salt bridge; other site 387344005164 sequence-specific DNA binding site [nucleotide binding]; other site 387344005165 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 387344005166 active site 387344005167 DNA binding site [nucleotide binding] 387344005168 Protein of unknown function, DUF488; Region: DUF488; cl01246 387344005169 beta-phosphoglucomutase; Region: bPGM; TIGR01990 387344005170 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 387344005171 motif II; other site 387344005172 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 387344005173 Ligand Binding Site [chemical binding]; other site 387344005174 BCCT family transporter; Region: BCCT; cl00569 387344005175 maltose O-acetyltransferase; Provisional; Region: PRK10092 387344005176 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 387344005177 active site 387344005178 substrate binding site [chemical binding]; other site 387344005179 trimer interface [polypeptide binding]; other site 387344005180 CoA binding site [chemical binding]; other site 387344005181 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 387344005182 dimer interface [polypeptide binding]; other site 387344005183 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 387344005184 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 387344005185 RNA/DNA hybrid binding site [nucleotide binding]; other site 387344005186 active site 387344005187 cytosine deaminase; Provisional; Region: PRK09230 387344005188 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 387344005189 active site 387344005190 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 387344005191 dimer interface [polypeptide binding]; other site 387344005192 substrate binding site [chemical binding]; other site 387344005193 ATP binding site [chemical binding]; other site 387344005194 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 387344005195 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344005196 Helix-turn-helix domains; Region: HTH; cl00088 387344005197 Helix-turn-helix domains; Region: HTH; cl00088 387344005198 Integrase core domain; Region: rve; cl01316 387344005199 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 387344005200 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 387344005201 DNA-binding site [nucleotide binding]; DNA binding site 387344005202 RNA-binding motif; other site 387344005203 Predicted esterase [General function prediction only]; Region: COG0400 387344005204 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 387344005205 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 387344005206 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 387344005207 minor groove reading motif; other site 387344005208 helix-hairpin-helix signature motif; other site 387344005209 substrate binding pocket [chemical binding]; other site 387344005210 active site 387344005211 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 387344005212 DNA binding and oxoG recognition site [nucleotide binding] 387344005213 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 387344005214 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 387344005215 peptide binding site [polypeptide binding]; other site 387344005216 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 387344005217 flagellin; Validated; Region: PRK08026 387344005218 MucBP domain; Region: MucBP; pfam06458 387344005219 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 387344005220 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 387344005221 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 387344005222 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 387344005223 lipoyl attachment site [posttranslational modification]; other site 387344005224 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 387344005225 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 387344005226 active site 387344005227 catalytic tetrad [active] 387344005228 EamA-like transporter family; Region: EamA; cl01037 387344005229 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 387344005230 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 387344005231 dimer interface [polypeptide binding]; other site 387344005232 conserved gate region; other site 387344005233 ABC-ATPase subunit interface; other site 387344005234 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. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 387344005235 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 387344005236 Walker A/P-loop; other site 387344005237 ATP binding site [chemical binding]; other site 387344005238 Q-loop/lid; other site 387344005239 ABC transporter signature motif; other site 387344005240 Walker B; other site 387344005241 D-loop; other site 387344005242 H-loop/switch region; other site 387344005243 NIL domain; Region: NIL; cl09633 387344005244 NMT1-like family; Region: NMT1_2; cl15260 387344005245 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 387344005246 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 387344005247 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 387344005248 peptide binding site [polypeptide binding]; other site 387344005249 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 387344005250 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 387344005251 Fibronectin type III-like domain; Region: Fn3-like; cl15273 387344005252 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 387344005253 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 387344005254 active site 387344005255 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 387344005256 AAA domain; Region: AAA_23; pfam13476 387344005257 Walker A/P-loop; other site 387344005258 ATP binding site [chemical binding]; other site 387344005259 Q-loop/lid; other site 387344005260 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 387344005261 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344005262 ABC transporter signature motif; other site 387344005263 Walker B; other site 387344005264 D-loop; other site 387344005265 H-loop/switch region; other site 387344005266 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 387344005267 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 387344005268 active site 387344005269 metal binding site [ion binding]; metal-binding site 387344005270 DNA binding site [nucleotide binding] 387344005271 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 387344005272 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 387344005273 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 387344005274 active site 387344005275 PlyB is a bacteriophage endolysin that displays potent lytic activity toward Bacillus anthracis. PlyB has an N-terminal glycosyl hydrolase family 25 (GH25) catalytic domain and a C-terminal bacterial SH3-like domain, SH3b. Both domains are required for...; Region: GH25_PlyB-like; cd06523 387344005276 active site 387344005277 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 387344005278 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 387344005279 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 387344005280 Cupin domain; Region: Cupin_2; cl09118 387344005281 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 387344005282 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 387344005283 DNA binding residues [nucleotide binding] 387344005284 putative dimer interface [polypeptide binding]; other site 387344005285 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 387344005286 Helix-turn-helix domains; Region: HTH; cl00088 387344005287 Helix-turn-helix domains; Region: HTH; cl00088 387344005288 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 387344005289 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 387344005290 active site 387344005291 catalytic tetrad [active] 387344005292 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 387344005293 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 387344005294 putative substrate translocation pore; other site 387344005295 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 387344005296 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 387344005297 putative substrate translocation pore; other site 387344005298 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 387344005299 phosphate binding site [ion binding]; other site 387344005300 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 387344005301 Hexamer/Pentamer interface [polypeptide binding]; other site 387344005302 central pore; other site 387344005303 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 387344005304 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 387344005305 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 ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 387344005306 Walker A/P-loop; other site 387344005307 ATP binding site [chemical binding]; other site 387344005308 Q-loop/lid; other site 387344005309 ABC transporter signature motif; other site 387344005310 Walker B; other site 387344005311 D-loop; other site 387344005312 H-loop/switch region; other site 387344005313 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 ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 387344005314 Walker A/P-loop; other site 387344005315 ATP binding site [chemical binding]; other site 387344005316 Q-loop/lid; other site 387344005317 ABC transporter signature motif; other site 387344005318 Walker B; other site 387344005319 D-loop; other site 387344005320 H-loop/switch region; other site 387344005321 Cobalt transport protein; Region: CbiQ; cl00463 387344005322 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 387344005323 Flavoprotein; Region: Flavoprotein; cl08021 387344005324 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 387344005325 Transcriptional regulator [Transcription]; Region: LysR; COG0583 387344005326 Helix-turn-helix domains; Region: HTH; cl00088 387344005327 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 387344005328 dimerization interface [polypeptide binding]; other site 387344005329 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 387344005330 active site 387344005331 catalytic residues [active] 387344005332 metal binding site [ion binding]; metal-binding site 387344005333 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 387344005334 active site 387344005335 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 387344005336 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 387344005337 Protein of unknown function (DUF419); Region: DUF419; cl15265 387344005338 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 387344005339 amphipathic channel; other site 387344005340 Asn-Pro-Ala signature motifs; other site 387344005341 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 387344005342 putative substrate binding pocket [chemical binding]; other site 387344005343 AC domain interface; other site 387344005344 catalytic triad [active] 387344005345 AB domain interface; other site 387344005346 interchain disulfide; other site 387344005347 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 387344005348 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 387344005349 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344005350 Walker A/P-loop; other site 387344005351 ATP binding site [chemical binding]; other site 387344005352 Q-loop/lid; other site 387344005353 ABC transporter signature motif; other site 387344005354 Walker B; other site 387344005355 D-loop; other site 387344005356 H-loop/switch region; other site 387344005357 Helix-turn-helix domains; Region: HTH; cl00088 387344005358 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 387344005359 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 387344005360 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 387344005361 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 387344005362 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 387344005363 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344005364 Walker A/P-loop; other site 387344005365 ATP binding site [chemical binding]; other site 387344005366 Q-loop/lid; other site 387344005367 ABC transporter signature motif; other site 387344005368 Walker B; other site 387344005369 D-loop; other site 387344005370 H-loop/switch region; other site 387344005371 Predicted transcriptional regulators [Transcription]; Region: COG1725 387344005372 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 387344005373 DNA-binding site [nucleotide binding]; DNA binding site 387344005374 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 387344005375 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 387344005376 catalytic residues [active] 387344005377 dimer interface [polypeptide binding]; other site 387344005378 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 387344005379 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 387344005380 active site 387344005381 motif I; other site 387344005382 motif II; other site 387344005383 Major Facilitator Superfamily; Region: MFS_1; pfam07690 387344005384 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 387344005385 putative substrate translocation pore; other site 387344005386 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 387344005387 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387344005388 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 387344005389 active site 387344005390 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 387344005391 classical (c) SDRs; Region: SDR_c; cd05233 387344005392 NAD(P) binding site [chemical binding]; other site 387344005393 active site 387344005394 Helix-turn-helix domains; Region: HTH; cl00088 387344005395 Asp23 family; Region: Asp23; cl00574 387344005396 Asp23 family; Region: Asp23; cl00574 387344005397 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 387344005398 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 387344005399 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 387344005400 putative dimer interface [polypeptide binding]; other site 387344005401 putative anticodon binding site; other site 387344005402 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 387344005403 homodimer interface [polypeptide binding]; other site 387344005404 motif 1; other site 387344005405 motif 2; other site 387344005406 active site 387344005407 motif 3; other site 387344005408 Helix-turn-helix domains; Region: HTH; cl00088 387344005409 B3/4 domain; Region: B3_4; cl11458 387344005410 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 387344005411 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 387344005412 ligand binding site [chemical binding]; other site 387344005413 flexible hinge region; other site 387344005414 Helix-turn-helix domains; Region: HTH; cl00088 387344005415 carbamate kinase; Reviewed; Region: PRK12686 387344005416 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 387344005417 putative substrate binding site [chemical binding]; other site 387344005418 nucleotide binding site [chemical binding]; other site 387344005419 nucleotide binding site [chemical binding]; other site 387344005420 homodimer interface [polypeptide binding]; other site 387344005421 transaminase; Validated; Region: PRK07324 387344005422 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 387344005423 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387344005424 homodimer interface [polypeptide binding]; other site 387344005425 catalytic residue [active] 387344005426 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 387344005427 ornithine carbamoyltransferase; Validated; Region: PRK02102 387344005428 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 387344005429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344005430 Amidinotransferase; Region: Amidinotransf; cl12043 387344005431 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; cl15357 387344005432 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 387344005433 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 387344005434 ATP binding site [chemical binding]; other site 387344005435 Mg2+ binding site [ion binding]; other site 387344005436 G-X-G motif; other site 387344005437 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 387344005438 Response regulator receiver domain; Region: Response_reg; pfam00072 387344005439 active site 387344005440 phosphorylation site [posttranslational modification] 387344005441 intermolecular recognition site; other site 387344005442 dimerization interface [polypeptide binding]; other site 387344005443 YcbB domain; Region: YcbB; pfam08664 387344005444 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 387344005445 hypothetical protein; Provisional; Region: PRK07205 387344005446 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 387344005447 active site 387344005448 metal binding site [ion binding]; metal-binding site 387344005449 Predicted membrane protein [Function unknown]; Region: COG3371 387344005450 Protein of unknown function (DUF998); Region: DUF998; pfam06197 387344005451 DJ-1 family protein; Region: not_thiJ; TIGR01383 387344005452 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 387344005453 conserved cys residue [active] 387344005454 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 387344005455 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 387344005456 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 387344005457 Transposase domain (DUF772); Region: DUF772; cl15789 387344005458 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 387344005459 Transposase domain (DUF772); Region: DUF772; cl15789 387344005460 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 387344005461 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 387344005462 Protein of unknown function (DUF3781); Region: DUF3781; pfam12636 387344005463 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 387344005464 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 387344005465 Coenzyme A binding pocket [chemical binding]; other site 387344005466 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 387344005467 catalytic core [active] 387344005468 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 387344005469 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 387344005470 Collagen binding domain; Region: Collagen_bind; pfam05737 387344005471 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 387344005472 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 387344005473 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 387344005474 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 387344005475 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 387344005476 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 387344005477 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 387344005478 S-adenosylmethionine binding site [chemical binding]; other site 387344005479 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 387344005480 AzlC protein; Region: AzlC; cl00570 387344005481 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 387344005482 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 387344005483 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 387344005484 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 387344005485 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 387344005486 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 387344005487 Predicted membrane protein [Function unknown]; Region: COG1511 387344005488 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 387344005489 Predicted membrane protein [Function unknown]; Region: COG1511 387344005490 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 387344005491 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 387344005492 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 387344005493 ABC-2 type transporter; Region: ABC2_membrane; cl11417 387344005494 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 387344005495 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 387344005496 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 387344005497 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 387344005498 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 387344005499 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 387344005500 dimer interface [polypeptide binding]; other site 387344005501 phosphorylation site [posttranslational modification] 387344005502 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 387344005503 ATP binding site [chemical binding]; other site 387344005504 Mg2+ binding site [ion binding]; other site 387344005505 G-X-G motif; other site 387344005506 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387344005507 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 387344005508 active site 387344005509 phosphorylation site [posttranslational modification] 387344005510 intermolecular recognition site; other site 387344005511 dimerization interface [polypeptide binding]; other site 387344005512 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 387344005513 DNA binding site [nucleotide binding] 387344005514 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK06843 387344005515 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 guanine...; Region: IMPDH; cd00381 387344005516 active site 387344005517 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 387344005518 GTP-binding protein YchF; Reviewed; Region: PRK09601 387344005519 YchF GTPase; Region: YchF; cd01900 387344005520 G1 box; other site 387344005521 GTP/Mg2+ binding site [chemical binding]; other site 387344005522 Switch I region; other site 387344005523 G2 box; other site 387344005524 Switch II region; other site 387344005525 G3 box; other site 387344005526 G4 box; other site 387344005527 G5 box; other site 387344005528 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 387344005529 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 387344005530 ParB-like partition proteins; Region: parB_part; TIGR00180 387344005531 ParB-like nuclease domain; Region: ParBc; cl02129 387344005532 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 387344005533 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 387344005534 P-loop; other site 387344005535 Magnesium ion binding site [ion binding]; other site 387344005536 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 387344005537 Magnesium ion binding site [ion binding]; other site 387344005538 ParB-like partition proteins; Region: parB_part; TIGR00180 387344005539 ParB-like nuclease domain; Region: ParBc; cl02129 387344005540 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; cl15754 387344005541 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 387344005542 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 387344005543 active site 387344005544 metal binding site [ion binding]; metal-binding site 387344005545 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 387344005546 active site 387344005547 tetramer interface [polypeptide binding]; other site 387344005548 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 387344005549 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 387344005550 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 387344005551 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 387344005552 Sulfatase; Region: Sulfatase; cl10460 387344005553 Sulfatase; Region: Sulfatase; cl10460 387344005554 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 387344005555 Transposase; Region: DDE_Tnp_ISL3; pfam01610 387344005556 atypical (a) SDRs, subgroup 6; Region: SDR_a6; cd05267 387344005557 NADH(P)-binding; Region: NAD_binding_10; pfam13460 387344005558 putative NAD(P) binding site [chemical binding]; other site 387344005559 Helix-turn-helix domains; Region: HTH; cl00088 387344005560 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 387344005561 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 387344005562 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 387344005563 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387344005564 homodimer interface [polypeptide binding]; other site 387344005565 catalytic residue [active] 387344005566 Transcriptional regulator [Transcription]; Region: LysR; COG0583 387344005567 Helix-turn-helix domains; Region: HTH; cl00088 387344005568 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 387344005569 dimerization interface [polypeptide binding]; other site 387344005570 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 387344005571 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 387344005572 thiamine phosphate binding site [chemical binding]; other site 387344005573 active site 387344005574 pyrophosphate binding site [ion binding]; other site 387344005575 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 387344005576 dimer interface [polypeptide binding]; other site 387344005577 substrate binding site [chemical binding]; other site 387344005578 ATP binding site [chemical binding]; other site 387344005579 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 387344005580 substrate binding site [chemical binding]; other site 387344005581 multimerization interface [polypeptide binding]; other site 387344005582 ATP binding site [chemical binding]; other site 387344005583 short chain dehydrogenase; Validated; Region: PRK06182 387344005584 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 387344005585 NADP binding site [chemical binding]; other site 387344005586 active site 387344005587 steroid binding site; other site 387344005588 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 387344005589 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 387344005590 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 387344005591 Walker A/P-loop; other site 387344005592 ATP binding site [chemical binding]; other site 387344005593 Q-loop/lid; other site 387344005594 ABC transporter signature motif; other site 387344005595 Walker B; other site 387344005596 D-loop; other site 387344005597 H-loop/switch region; other site 387344005598 TRAM domain; Region: TRAM; cl01282 387344005599 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 387344005600 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; cl15754 387344005601 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 387344005602 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 387344005603 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 387344005604 DNA binding residues [nucleotide binding] 387344005605 putative dimer interface [polypeptide binding]; other site 387344005606 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 387344005607 hydrophobic ligand binding site; other site 387344005608 Domain of unknown function (DUF368); Region: DUF368; cl00893 387344005609 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 387344005610 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 387344005611 DNA binding residues [nucleotide binding] 387344005612 dimer interface [polypeptide binding]; other site 387344005613 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 387344005614 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 387344005615 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 387344005616 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 387344005617 active site 387344005618 catalytic tetrad [active] 387344005619 recombination factor protein RarA; Reviewed; Region: PRK13342 387344005620 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 387344005621 Walker A motif; other site 387344005622 ATP binding site [chemical binding]; other site 387344005623 Walker B motif; other site 387344005624 arginine finger; other site 387344005625 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 387344005626 phosphodiesterase; Provisional; Region: PRK12704 387344005627 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 387344005628 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 387344005629 Zn2+ binding site [ion binding]; other site 387344005630 Mg2+ binding site [ion binding]; other site 387344005631 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 387344005632 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 387344005633 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 387344005634 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 387344005635 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 387344005636 active site 387344005637 Zn binding site [ion binding]; other site 387344005638 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 387344005639 non-specific DNA binding site [nucleotide binding]; other site 387344005640 salt bridge; other site 387344005641 sequence-specific DNA binding site [nucleotide binding]; other site 387344005642 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 387344005643 putative active site [active] 387344005644 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 387344005645 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 387344005646 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 387344005647 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 387344005648 amino acid transporter; Region: 2A0306; TIGR00909 387344005649 Spore germination protein; Region: Spore_permease; cl15802 387344005650 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 387344005651 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 387344005652 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 387344005653 Transcriptional regulators [Transcription]; Region: MarR; COG1846 387344005654 Helix-turn-helix domains; Region: HTH; cl00088 387344005655 Helix-turn-helix domains; Region: HTH; cl00088 387344005656 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 387344005657 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 387344005658 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 387344005659 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 387344005660 active site 387344005661 NlpC/P60 family; Region: NLPC_P60; cl11438 387344005662 Transposase; Region: DDE_Tnp_ISL3; pfam01610 387344005663 stage V sporulation protein B; Region: spore_V_B; TIGR02900 387344005664 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 387344005665 non-specific DNA binding site [nucleotide binding]; other site 387344005666 salt bridge; other site 387344005667 sequence-specific DNA binding site [nucleotide binding]; other site 387344005668 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 387344005669 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 387344005670 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 387344005671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344005672 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 387344005673 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; cl15762 387344005674 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 387344005675 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 387344005676 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 387344005677 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 387344005678 active site 387344005679 metal binding site [ion binding]; metal-binding site 387344005680 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 387344005681 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 387344005682 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 387344005683 Transcriptional regulators [Transcription]; Region: PurR; COG1609 387344005684 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 387344005685 DNA binding site [nucleotide binding] 387344005686 domain linker motif; other site 387344005687 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 387344005688 dimerization interface [polypeptide binding]; other site 387344005689 ligand binding site [chemical binding]; other site 387344005690 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 387344005691 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 387344005692 Protein of unknown function (DUF436); Region: DUF436; cl01860 387344005693 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 387344005694 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 387344005695 dimer interface [polypeptide binding]; other site 387344005696 substrate binding site [chemical binding]; other site 387344005697 ATP binding site [chemical binding]; other site 387344005698 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 387344005699 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 387344005700 DNA-binding site [nucleotide binding]; DNA binding site 387344005701 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 387344005702 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387344005703 homodimer interface [polypeptide binding]; other site 387344005704 catalytic residue [active] 387344005705 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 387344005706 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 387344005707 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 387344005708 Walker A/P-loop; other site 387344005709 ATP binding site [chemical binding]; other site 387344005710 Q-loop/lid; other site 387344005711 ABC transporter signature motif; other site 387344005712 Walker B; other site 387344005713 D-loop; other site 387344005714 H-loop/switch region; other site 387344005715 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 387344005716 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 387344005717 dimer interface [polypeptide binding]; other site 387344005718 conserved gate region; other site 387344005719 ABC-ATPase subunit interface; other site 387344005720 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 387344005721 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 387344005722 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 387344005723 active site 387344005724 metal binding site [ion binding]; metal-binding site 387344005725 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 387344005726 L-threonine dehydrogenase; Region: threonine_DH_like; cd08234 387344005727 putative NAD(P) binding site [chemical binding]; other site 387344005728 catalytic Zn binding site [ion binding]; other site 387344005729 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 387344005730 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 387344005731 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 387344005732 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 387344005733 dimer interface [polypeptide binding]; other site 387344005734 active site 387344005735 metal binding site [ion binding]; metal-binding site 387344005736 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 387344005737 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 387344005738 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 387344005739 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 387344005740 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 387344005741 catalytic core [active] 387344005742 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 387344005743 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 387344005744 MFS/sugar transport protein; Region: MFS_2; pfam13347 387344005745 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344005746 Helix-turn-helix domains; Region: HTH; cl00088 387344005747 Integrase core domain; Region: rve; cl01316 387344005748 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 387344005749 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 387344005750 peptide binding site [polypeptide binding]; other site 387344005751 Transcriptional regulators [Transcription]; Region: PurR; COG1609 387344005752 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 387344005753 DNA binding site [nucleotide binding] 387344005754 domain linker motif; other site 387344005755 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 387344005756 dimerization interface [polypeptide binding]; other site 387344005757 ligand binding site [chemical binding]; other site 387344005758 Major Facilitator Superfamily; Region: MFS_1; pfam07690 387344005759 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 387344005760 putative substrate translocation pore; other site 387344005761 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 387344005762 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 387344005763 Ca binding site [ion binding]; other site 387344005764 active site 387344005765 catalytic site [active] 387344005766 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 387344005767 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 387344005768 DNA binding residues [nucleotide binding] 387344005769 putative dimer interface [polypeptide binding]; other site 387344005770 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 387344005771 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 387344005772 putative active site [active] 387344005773 putative FMN binding site [chemical binding]; other site 387344005774 putative substrate binding site [chemical binding]; other site 387344005775 putative catalytic residue [active] 387344005776 Helix-turn-helix domains; Region: HTH; cl00088 387344005777 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 387344005778 putative dimer interface [polypeptide binding]; other site 387344005779 catalytic triad [active] 387344005780 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 387344005781 active site 387344005782 tetramer interface [polypeptide binding]; other site 387344005783 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 387344005784 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 387344005785 ligand binding site [chemical binding]; other site 387344005786 flexible hinge region; other site 387344005787 Helix-turn-helix domains; Region: HTH; cl00088 387344005788 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 387344005789 Cation efflux family; Region: Cation_efflux; cl00316 387344005790 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 387344005791 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 387344005792 dimer interface [polypeptide binding]; other site 387344005793 active site 387344005794 metal binding site [ion binding]; metal-binding site 387344005795 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 387344005796 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387344005797 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 387344005798 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 387344005799 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 387344005800 substrate binding site [chemical binding]; other site 387344005801 D-galactonate transporter; Region: 2A0114; TIGR00893 387344005802 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 387344005803 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 387344005804 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 387344005805 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 387344005806 Walker A/P-loop; other site 387344005807 ATP binding site [chemical binding]; other site 387344005808 Q-loop/lid; other site 387344005809 ABC transporter signature motif; other site 387344005810 Walker B; other site 387344005811 D-loop; other site 387344005812 H-loop/switch region; other site 387344005813 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 387344005814 FtsX-like permease family; Region: FtsX; cl15850 387344005815 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 387344005816 Helix-turn-helix domains; Region: HTH; cl00088 387344005817 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 387344005818 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 387344005819 Thiamine-precursor transporter protein (ThiW); Region: ThiW; cl01952 387344005820 Membrane transport protein; Region: Mem_trans; cl09117 387344005821 malate dehydrogenase; Provisional; Region: PRK13529 387344005822 Malic enzyme, N-terminal domain; Region: malic; pfam00390 387344005823 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 387344005824 NAD(P) binding site [chemical binding]; other site 387344005825 Transcriptional regulator [Transcription]; Region: LysR; COG0583 387344005826 Helix-turn-helix domains; Region: HTH; cl00088 387344005827 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 387344005828 dimerization interface [polypeptide binding]; other site 387344005829 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 387344005830 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 387344005831 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 387344005832 putative active site [active] 387344005833 agmatine deiminase; Region: agmatine_aguA; TIGR03380 387344005834 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 387344005835 carbamate kinase; Reviewed; Region: PRK12686 387344005836 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 387344005837 putative substrate binding site [chemical binding]; other site 387344005838 nucleotide binding site [chemical binding]; other site 387344005839 nucleotide binding site [chemical binding]; other site 387344005840 homodimer interface [polypeptide binding]; other site 387344005841 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 387344005842 agmatine deiminase; Region: agmatine_aguA; TIGR03380 387344005843 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 387344005844 putrescine carbamoyltransferase; Provisional; Region: PRK02255 387344005845 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 387344005846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344005847 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 387344005848 Chromate transporter; Region: Chromate_transp; pfam02417 387344005849 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 387344005850 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 387344005851 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 387344005852 catalytic residue [active] 387344005853 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 387344005854 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 387344005855 active site 387344005856 HIGH motif; other site 387344005857 dimer interface [polypeptide binding]; other site 387344005858 KMSKS motif; other site 387344005859 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 387344005860 putative acyltransferase; Provisional; Region: PRK05790 387344005861 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 387344005862 dimer interface [polypeptide binding]; other site 387344005863 active site 387344005864 envelope glycoprotein M; Provisional; Region: PHA03242 387344005865 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 387344005866 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 387344005867 CsbD-like; Region: CsbD; cl15799 387344005868 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 387344005869 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 387344005870 Cupin domain; Region: Cupin_2; cl09118 387344005871 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 387344005872 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 387344005873 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 387344005874 Protein of unknown function (DUF328); Region: DUF328; cl01143 387344005875 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 387344005876 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 387344005877 active site 387344005878 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 387344005879 active site 387344005880 dimer interface [polypeptide binding]; other site 387344005881 benzoate transport; Region: 2A0115; TIGR00895 387344005882 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 387344005883 putative substrate translocation pore; other site 387344005884 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 387344005885 Protein of unknown function; Region: DUF3658; pfam12395 387344005886 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 387344005887 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 387344005888 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 387344005889 substrate binding site [chemical binding]; other site 387344005890 ATP binding site [chemical binding]; other site 387344005891 Sodium:solute symporter family; Region: SSF; cl00456 387344005892 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 387344005893 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 387344005894 DNA-binding site [nucleotide binding]; DNA binding site 387344005895 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 387344005896 UTRA domain; Region: UTRA; cl01230 387344005897 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 387344005898 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 387344005899 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 387344005900 catalytic triad [active] 387344005901 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 387344005902 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 387344005903 G1 box; other site 387344005904 putative GEF interaction site [polypeptide binding]; other site 387344005905 GTP/Mg2+ binding site [chemical binding]; other site 387344005906 Switch I region; other site 387344005907 G2 box; other site 387344005908 G3 box; other site 387344005909 Switch II region; other site 387344005910 G4 box; other site 387344005911 G5 box; other site 387344005912 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 387344005913 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 387344005914 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 387344005915 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 387344005916 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 387344005917 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387344005918 homodimer interface [polypeptide binding]; other site 387344005919 catalytic residue [active] 387344005920 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344005921 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 387344005922 NAD(P) binding site [chemical binding]; other site 387344005923 active site 387344005924 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 387344005925 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 387344005926 putative substrate translocation pore; other site 387344005927 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 387344005928 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 387344005929 active site 387344005930 substrate binding site [chemical binding]; other site 387344005931 trimer interface [polypeptide binding]; other site 387344005932 CoA binding site [chemical binding]; other site 387344005933 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 387344005934 active site 387344005935 zinc binding site [ion binding]; other site 387344005936 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344005937 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 387344005938 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344005939 Walker A motif; other site 387344005940 ATP binding site [chemical binding]; other site 387344005941 Walker B motif; other site 387344005942 Uncharacterized conserved protein [Function unknown]; Region: COG3410 387344005943 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 387344005944 non-specific DNA binding site [nucleotide binding]; other site 387344005945 salt bridge; other site 387344005946 sequence-specific DNA binding site [nucleotide binding]; other site 387344005947 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 387344005948 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 387344005949 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 387344005950 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 387344005951 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344005952 Helix-turn-helix domains; Region: HTH; cl00088 387344005953 Integrase core domain; Region: rve; cl01316 387344005954 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 387344005955 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 387344005956 dimer interface [polypeptide binding]; other site 387344005957 conserved gate region; other site 387344005958 putative PBP binding loops; other site 387344005959 ABC-ATPase subunit interface; other site 387344005960 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 387344005961 dimer interface [polypeptide binding]; other site 387344005962 conserved gate region; other site 387344005963 putative PBP binding loops; other site 387344005964 ABC-ATPase subunit interface; other site 387344005965 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 387344005966 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 387344005967 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 387344005968 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 387344005969 Walker A/P-loop; other site 387344005970 ATP binding site [chemical binding]; other site 387344005971 Q-loop/lid; other site 387344005972 ABC transporter signature motif; other site 387344005973 Walker B; other site 387344005974 D-loop; other site 387344005975 H-loop/switch region; other site 387344005976 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 387344005977 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 387344005978 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 387344005979 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 387344005980 Predicted transcriptional regulator [Transcription]; Region: COG1959 387344005981 Helix-turn-helix domains; Region: HTH; cl00088 387344005982 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 387344005983 legume lectins; Region: lectin_L-type; cl14058 387344005984 carbohydrate binding site [chemical binding]; other site 387344005985 metal binding site [ion binding]; metal-binding site 387344005986 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 387344005987 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 387344005988 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 387344005989 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344005990 Family description; Region: UvrD_C_2; cl15862 387344005991 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 387344005992 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 387344005993 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 387344005994 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 387344005995 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 387344005996 metal binding site [ion binding]; metal-binding site 387344005997 dimer interface [polypeptide binding]; other site 387344005998 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 387344005999 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 387344006000 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344006001 NADH(P)-binding; Region: NAD_binding_10; pfam13460 387344006002 NAD(P) binding site [chemical binding]; other site 387344006003 active site 387344006004 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 387344006005 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 387344006006 active site 387344006007 catalytic tetrad [active] 387344006008 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 387344006009 Helix-turn-helix domains; Region: HTH; cl00088 387344006010 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344006011 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 387344006012 Walker A/P-loop; other site 387344006013 ATP binding site [chemical binding]; other site 387344006014 Q-loop/lid; other site 387344006015 ABC transporter signature motif; other site 387344006016 Walker B; other site 387344006017 D-loop; other site 387344006018 H-loop/switch region; other site 387344006019 ABC-2 type transporter; Region: ABC2_membrane; cl11417 387344006020 UbiA prenyltransferase family; Region: UbiA; cl00337 387344006021 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 387344006022 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 387344006023 QueT transporter; Region: QueT; cl01932 387344006024 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 387344006025 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 387344006026 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 387344006027 inhibitor binding site; inhibition site 387344006028 active site 387344006029 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 387344006030 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 387344006031 MFS/sugar transport protein; Region: MFS_2; pfam13347 387344006032 Cupin domain; Region: Cupin_2; cl09118 387344006033 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 387344006034 Helix-turn-helix domain; Region: HTH_18; pfam12833 387344006035 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 387344006036 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 387344006037 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 387344006038 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 387344006039 putative active site [active] 387344006040 catalytic site [active] 387344006041 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 387344006042 putative active site [active] 387344006043 catalytic site [active] 387344006044 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 387344006045 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 387344006046 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 387344006047 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 387344006048 motif II; other site 387344006049 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 387344006050 trimer interface [polypeptide binding]; other site 387344006051 active site 387344006052 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 387344006053 Helix-turn-helix domains; Region: HTH; cl00088 387344006054 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 387344006055 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 387344006056 Catalytic site [active] 387344006057 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 387344006058 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 387344006059 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 387344006060 putative substrate translocation pore; other site 387344006061 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 387344006062 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 387344006063 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 387344006064 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344006065 NADH(P)-binding; Region: NAD_binding_10; pfam13460 387344006066 NAD(P) binding site [chemical binding]; other site 387344006067 active site 387344006068 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 387344006069 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 387344006070 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 387344006071 motif II; other site 387344006072 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 387344006073 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 387344006074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344006075 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 387344006076 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 387344006077 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 387344006078 trmE is a tRNA modification GTPase; Region: trmE; cd04164 387344006079 G1 box; other site 387344006080 GTP/Mg2+ binding site [chemical binding]; other site 387344006081 Switch I region; other site 387344006082 G2 box; other site 387344006083 Switch II region; other site 387344006084 G3 box; other site 387344006085 G4 box; other site 387344006086 G5 box; other site 387344006087 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 387344006088 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 387344006089 G-X-X-G motif; other site 387344006090 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 387344006091 RxxxH motif; other site 387344006092 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 387344006093 Ribonuclease P; Region: Ribonuclease_P; cl00457 387344006094 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 387344006095 RelB antitoxin; Region: RelB; cl01171 387344006096 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 387344006097 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387344006098 Walker A motif; other site 387344006099 ATP binding site [chemical binding]; other site 387344006100 Walker B motif; other site 387344006101 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 387344006102 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 387344006103 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 387344006104 Helix-turn-helix domains; Region: HTH; cl00088 387344006105 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 387344006106 non-specific DNA binding site [nucleotide binding]; other site 387344006107 salt bridge; other site 387344006108 sequence-specific DNA binding site [nucleotide binding]; other site 387344006109 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 387344006110 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 387344006111 non-specific DNA binding site [nucleotide binding]; other site 387344006112 salt bridge; other site 387344006113 sequence-specific DNA binding site [nucleotide binding]; other site 387344006114 MobA/MobL family; Region: MobA_MobL; pfam03389 387344006115 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 387344006116 multiple promoter invertase; Provisional; Region: mpi; PRK13413 387344006117 catalytic residues [active] 387344006118 catalytic nucleophile [active] 387344006119 Presynaptic Site I dimer interface [polypeptide binding]; other site 387344006120 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 387344006121 Synaptic Flat tetramer interface [polypeptide binding]; other site 387344006122 Synaptic Site I dimer interface [polypeptide binding]; other site 387344006123 DNA binding site [nucleotide binding] 387344006124 Helix-turn-helix domains; Region: HTH; cl00088 387344006125 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 387344006126 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 387344006127 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 387344006128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344006129 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 387344006130 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 387344006131 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 387344006132 Integrase core domain; Region: rve; cl01316 387344006133 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 387344006134 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 387344006135 P loop; other site 387344006136 Nucleotide binding site [chemical binding]; other site 387344006137 DTAP/Switch II; other site 387344006138 Switch I; other site 387344006139 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 387344006140 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 387344006141 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 387344006142 catalytic residues [active] 387344006143 catalytic nucleophile [active] 387344006144 Presynaptic Site I dimer interface [polypeptide binding]; other site 387344006145 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 387344006146 Synaptic Flat tetramer interface [polypeptide binding]; other site 387344006147 Synaptic Site I dimer interface [polypeptide binding]; other site 387344006148 DNA binding site [nucleotide binding] 387344006149 Helix-turn-helix domains; Region: HTH; cl00088 387344006150 DNA-binding interface [nucleotide binding]; DNA binding site 387344006151 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 387344006152 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 387344006153 Magnesium ion binding site [ion binding]; other site 387344006154 Protein of unknown function (DUF3847); Region: DUF3847; pfam12958 387344006155 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 387344006156 active site 387344006157 DNA binding site [nucleotide binding] 387344006158 Int/Topo IB signature motif; other site 387344006159 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 387344006160 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 387344006161 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 387344006162 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 387344006163 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 387344006164 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 387344006165 ATP binding site [chemical binding]; other site 387344006166 putative Mg++ binding site [ion binding]; other site 387344006167 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387344006168 Initiator Replication protein; Region: Rep_3; cl03080