-- dump date 20140619_123824 -- class Genbank::misc_feature -- table misc_feature_note -- id note 257314000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 257314000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 257314000003 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 257314000004 Walker A motif; other site 257314000005 ATP binding site [chemical binding]; other site 257314000006 Walker B motif; other site 257314000007 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 257314000008 arginine finger; other site 257314000009 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 257314000010 DnaA box-binding interface [nucleotide binding]; other site 257314000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 257314000012 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 257314000013 putative DNA binding surface [nucleotide binding]; other site 257314000014 dimer interface [polypeptide binding]; other site 257314000015 beta-clamp/clamp loader binding surface; other site 257314000016 beta-clamp/translesion DNA polymerase binding surface; other site 257314000017 S4 domain; Region: S4_2; pfam13275 257314000018 recombination protein F; Reviewed; Region: recF; PRK00064 257314000019 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 257314000020 Walker A/P-loop; other site 257314000021 ATP binding site [chemical binding]; other site 257314000022 Q-loop/lid; other site 257314000023 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314000024 ABC transporter signature motif; other site 257314000025 Walker B; other site 257314000026 D-loop; other site 257314000027 H-loop/switch region; other site 257314000028 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 257314000029 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 257314000030 Mg2+ binding site [ion binding]; other site 257314000031 G-X-G motif; other site 257314000032 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 257314000033 anchoring element; other site 257314000034 dimer interface [polypeptide binding]; other site 257314000035 ATP binding site [chemical binding]; other site 257314000036 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 257314000037 active site 257314000038 putative metal-binding site [ion binding]; other site 257314000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 257314000040 DNA gyrase subunit A; Validated; Region: PRK05560 257314000041 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 257314000042 CAP-like domain; other site 257314000043 active site 257314000044 primary dimer interface [polypeptide binding]; other site 257314000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 257314000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 257314000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 257314000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 257314000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 257314000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 257314000051 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 257314000052 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 257314000053 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 257314000054 dimer interface [polypeptide binding]; other site 257314000055 ssDNA binding site [nucleotide binding]; other site 257314000056 tetramer (dimer of dimers) interface [polypeptide binding]; other site 257314000057 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 257314000058 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 257314000059 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 257314000060 Cl binding site [ion binding]; other site 257314000061 oligomer interface [polypeptide binding]; other site 257314000062 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 257314000063 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 257314000064 DHH family; Region: DHH; pfam01368 257314000065 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 257314000066 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 257314000067 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 257314000068 replicative DNA helicase; Region: DnaB; TIGR00665 257314000069 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 257314000070 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 257314000071 Walker A motif; other site 257314000072 ATP binding site [chemical binding]; other site 257314000073 Walker B motif; other site 257314000074 DNA binding loops [nucleotide binding] 257314000075 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 257314000076 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 257314000077 nucleotide binding site [chemical binding]; other site 257314000078 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 257314000079 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 257314000080 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 257314000081 Sterol carrier protein domain; Region: SCP2_2; pfam13530 257314000082 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 257314000083 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 257314000084 putative acyl-acceptor binding pocket; other site 257314000085 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257314000086 NADH(P)-binding; Region: NAD_binding_10; pfam13460 257314000087 NAD(P) binding site [chemical binding]; other site 257314000088 active site 257314000089 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 257314000090 sequence-specific DNA binding site [nucleotide binding]; other site 257314000091 salt bridge; other site 257314000092 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 257314000093 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 257314000094 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 257314000095 ATP binding site [chemical binding]; other site 257314000096 substrate interface [chemical binding]; other site 257314000097 Protein of unknown function (DUF975); Region: DUF975; cl10504 257314000098 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 257314000099 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 257314000100 motif II; other site 257314000101 EDD domain protein, DegV family; Region: DegV; TIGR00762 257314000102 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 257314000103 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 257314000104 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257314000105 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 257314000106 Walker A/P-loop; other site 257314000107 ATP binding site [chemical binding]; other site 257314000108 Q-loop/lid; other site 257314000109 ABC transporter signature motif; other site 257314000110 Walker B; other site 257314000111 D-loop; other site 257314000112 H-loop/switch region; other site 257314000113 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 257314000114 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 257314000115 non-specific DNA binding site [nucleotide binding]; other site 257314000116 salt bridge; other site 257314000117 sequence-specific DNA binding site [nucleotide binding]; other site 257314000118 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 257314000119 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 257314000120 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 257314000121 G1 box; other site 257314000122 putative GEF interaction site [polypeptide binding]; other site 257314000123 GTP/Mg2+ binding site [chemical binding]; other site 257314000124 Switch I region; other site 257314000125 G2 box; other site 257314000126 G3 box; other site 257314000127 Switch II region; other site 257314000128 G4 box; other site 257314000129 G5 box; other site 257314000130 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 257314000131 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 257314000132 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 257314000133 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 257314000134 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 257314000135 Cl- selectivity filter; other site 257314000136 Cl- binding residues [ion binding]; other site 257314000137 pore gating glutamate residue; other site 257314000138 dimer interface [polypeptide binding]; other site 257314000139 H+/Cl- coupling transport residue; other site 257314000140 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 257314000141 active site 257314000142 Zn binding site [ion binding]; other site 257314000143 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 257314000144 non-specific DNA binding site [nucleotide binding]; other site 257314000145 salt bridge; other site 257314000146 sequence-specific DNA binding site [nucleotide binding]; other site 257314000147 H+ Antiporter protein; Region: 2A0121; TIGR00900 257314000148 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 257314000149 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 257314000150 Integrase core domain; Region: rve; pfam00665 257314000151 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 257314000152 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 257314000153 Cl binding site [ion binding]; other site 257314000154 oligomer interface [polypeptide binding]; other site 257314000155 CsbD-like; Region: CsbD; cl17424 257314000156 Predicted membrane protein [Function unknown]; Region: COG2261 257314000157 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 257314000158 active site 257314000159 putative catalytic site [active] 257314000160 DNA binding site [nucleotide binding] 257314000161 putative phosphate binding site [ion binding]; other site 257314000162 metal binding site A [ion binding]; metal-binding site 257314000163 AP binding site [nucleotide binding]; other site 257314000164 metal binding site B [ion binding]; metal-binding site 257314000165 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 257314000166 PLD-like domain; Region: PLDc_2; pfam13091 257314000167 putative homodimer interface [polypeptide binding]; other site 257314000168 putative active site [active] 257314000169 catalytic site [active] 257314000170 DEAD-like helicases superfamily; Region: DEXDc; smart00487 257314000171 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 257314000172 ATP binding site [chemical binding]; other site 257314000173 putative Mg++ binding site [ion binding]; other site 257314000174 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 257314000175 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 257314000176 nucleotide binding region [chemical binding]; other site 257314000177 ATP-binding site [chemical binding]; other site 257314000178 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 257314000179 potential frameshift: common BLAST hit: gi|116628717|ref|YP_813889.1| alpha/beta hydrolase superfamily protein 257314000180 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 257314000181 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 257314000182 Protein of unknown function (DUF3923); Region: DUF3923; pfam13061 257314000183 Domain of unknown function DUF20; Region: UPF0118; pfam01594 257314000184 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 257314000185 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 257314000186 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 257314000187 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 257314000188 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 257314000189 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK06843 257314000190 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 257314000191 active site 257314000192 Isoamyl-acetate hydrolyzing esterase-like proteins. SGNH_hydrolase subfamily similar to the Saccharomyces cerevisiae IAH1. IAH1 may be the major esterase that hydrolyses isoamyl acetate in sake mash. The SGNH-family of hydrolases is a diverse family of...; Region: Isoamyl_acetate_hydrolase_like; cd01838 257314000193 catalytic triad [active] 257314000194 oxyanion hole [active] 257314000195 active site 257314000196 D-lactate dehydrogenase; Validated; Region: PRK08605 257314000197 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 257314000198 homodimer interface [polypeptide binding]; other site 257314000199 ligand binding site [chemical binding]; other site 257314000200 NAD binding site [chemical binding]; other site 257314000201 catalytic site [active] 257314000202 MucBP domain; Region: MucBP; pfam06458 257314000203 MucBP domain; Region: MucBP; pfam06458 257314000204 MucBP domain; Region: MucBP; pfam06458 257314000205 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 257314000206 MucBP domain; Region: MucBP; pfam06458 257314000207 MucBP domain; Region: MucBP; pfam06458 257314000208 MucBP domain; Region: MucBP; pfam06458 257314000209 MucBP domain; Region: MucBP; pfam06458 257314000210 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 257314000211 MucBP domain; Region: MucBP; pfam06458 257314000212 MucBP domain; Region: MucBP; pfam06458 257314000213 MucBP domain; Region: MucBP; pfam06458 257314000214 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 257314000215 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257314000216 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257314000217 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 257314000218 dimerization interface [polypeptide binding]; other site 257314000219 FMN-binding domain; Region: FMN_bind; pfam04205 257314000220 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 257314000221 L-aspartate oxidase; Provisional; Region: PRK06175 257314000222 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 257314000223 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 257314000224 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 257314000225 S-adenosylmethionine binding site [chemical binding]; other site 257314000226 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 257314000227 Predicted membrane protein [Function unknown]; Region: COG3212 257314000228 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 257314000229 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 257314000230 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 257314000231 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 257314000232 active site 257314000233 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 257314000234 putative substrate translocation pore; other site 257314000235 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 257314000236 putative substrate translocation pore; other site 257314000237 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 257314000238 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 257314000239 putative acyl-acceptor binding pocket; other site 257314000240 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 257314000241 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 257314000242 Ligand binding site; other site 257314000243 metal-binding site 257314000244 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 257314000245 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 257314000246 Ligand binding site; other site 257314000247 metal-binding site 257314000248 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 257314000249 Ligand binding site; other site 257314000250 metal-binding site 257314000251 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 257314000252 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 257314000253 putative acyl-acceptor binding pocket; other site 257314000254 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 257314000255 Transposase; Region: DDE_Tnp_ISL3; pfam01610 257314000256 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 257314000257 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 257314000258 active site 257314000259 phosphorylation site [posttranslational modification] 257314000260 intermolecular recognition site; other site 257314000261 dimerization interface [polypeptide binding]; other site 257314000262 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 257314000263 DNA binding site [nucleotide binding] 257314000264 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 257314000265 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 257314000266 dimerization interface [polypeptide binding]; other site 257314000267 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 257314000268 putative active site [active] 257314000269 heme pocket [chemical binding]; other site 257314000270 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 257314000271 dimer interface [polypeptide binding]; other site 257314000272 phosphorylation site [posttranslational modification] 257314000273 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 257314000274 ATP binding site [chemical binding]; other site 257314000275 Mg2+ binding site [ion binding]; other site 257314000276 G-X-G motif; other site 257314000277 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 257314000278 YycH protein; Region: YycH; pfam07435 257314000279 YycH protein; Region: YycI; pfam09648 257314000280 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 257314000281 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 257314000282 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 257314000283 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 257314000284 protein binding site [polypeptide binding]; other site 257314000285 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 257314000286 Cobalt transport protein; Region: CbiQ; cl00463 257314000287 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 257314000288 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 257314000289 Walker A/P-loop; other site 257314000290 ATP binding site [chemical binding]; other site 257314000291 Q-loop/lid; other site 257314000292 ABC transporter signature motif; other site 257314000293 Walker B; other site 257314000294 D-loop; other site 257314000295 H-loop/switch region; other site 257314000296 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 257314000297 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 257314000298 Walker A/P-loop; other site 257314000299 ATP binding site [chemical binding]; other site 257314000300 Q-loop/lid; other site 257314000301 ABC transporter signature motif; other site 257314000302 Walker B; other site 257314000303 D-loop; other site 257314000304 H-loop/switch region; other site 257314000305 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 257314000306 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 257314000307 heat shock protein HtpX; Provisional; Region: PRK04897 257314000308 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 257314000309 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 257314000310 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 257314000311 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 257314000312 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 257314000313 DXD motif; other site 257314000314 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 257314000315 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 257314000316 Zn2+ binding site [ion binding]; other site 257314000317 Mg2+ binding site [ion binding]; other site 257314000318 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 257314000319 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 257314000320 active site 257314000321 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 257314000322 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 257314000323 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 257314000324 Walker A/P-loop; other site 257314000325 ATP binding site [chemical binding]; other site 257314000326 Q-loop/lid; other site 257314000327 ABC transporter signature motif; other site 257314000328 Walker B; other site 257314000329 D-loop; other site 257314000330 H-loop/switch region; other site 257314000331 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 257314000332 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 257314000333 substrate binding pocket [chemical binding]; other site 257314000334 membrane-bound complex binding site; other site 257314000335 hinge residues; other site 257314000336 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 257314000337 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 257314000338 dimer interface [polypeptide binding]; other site 257314000339 conserved gate region; other site 257314000340 putative PBP binding loops; other site 257314000341 ABC-ATPase subunit interface; other site 257314000342 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 257314000343 active site 257314000344 DNA binding site [nucleotide binding] 257314000345 Protein of unknown function, DUF488; Region: DUF488; cl01246 257314000346 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 257314000347 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 257314000348 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 257314000349 active site 257314000350 DNA binding site [nucleotide binding] 257314000351 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 257314000352 NAD-dependent deacetylase; Provisional; Region: PRK00481 257314000353 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 257314000354 NAD+ binding site [chemical binding]; other site 257314000355 substrate binding site [chemical binding]; other site 257314000356 putative Zn binding site [ion binding]; other site 257314000357 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 257314000358 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 257314000359 putative active site [active] 257314000360 catalytic site [active] 257314000361 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 257314000362 putative active site [active] 257314000363 catalytic site [active] 257314000364 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 257314000365 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 257314000366 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 257314000367 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 257314000368 RNA/DNA hybrid binding site [nucleotide binding]; other site 257314000369 active site 257314000370 Predicted secreted protein [Function unknown]; Region: COG4086 257314000371 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 257314000372 putative glycosyl transferase; Provisional; Region: PRK10073 257314000373 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 257314000374 active site 257314000375 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 257314000376 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 257314000377 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 257314000378 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 257314000379 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 257314000380 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257314000381 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257314000382 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 257314000383 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 257314000384 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 257314000385 ATP-grasp domain; Region: ATP-grasp_4; cl17255 257314000386 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 257314000387 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 257314000388 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 257314000389 potential frameshift: common BLAST hit: gi|116628788|ref|YP_813960.1| multitransmembrane protein 257314000390 YibE/F-like protein; Region: YibE_F; cl02259 257314000391 YibE/F-like protein; Region: YibE_F; pfam07907 257314000392 YibE/F-like protein; Region: YibE_F; pfam07907 257314000393 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 257314000394 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 257314000395 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 257314000396 active site 257314000397 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 257314000398 catalytic site [active] 257314000399 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 257314000400 Interdomain contacts; other site 257314000401 Cytokine receptor motif; other site 257314000402 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 257314000403 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 257314000404 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257314000405 DNA-binding site [nucleotide binding]; DNA binding site 257314000406 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 257314000407 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 257314000408 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 257314000409 dimer interface [polypeptide binding]; other site 257314000410 active site 257314000411 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 257314000412 putative active site [active] 257314000413 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 257314000414 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 257314000415 active site 257314000416 dimer interface [polypeptide binding]; other site 257314000417 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 257314000418 active site 257314000419 phosphorylation site [posttranslational modification] 257314000420 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 257314000421 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 257314000422 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 257314000423 active pocket/dimerization site; other site 257314000424 active site 257314000425 phosphorylation site [posttranslational modification] 257314000426 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 257314000427 Double zinc ribbon; Region: DZR; pfam12773 257314000428 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 257314000429 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 257314000430 active site 257314000431 phosphorylation site [posttranslational modification] 257314000432 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 257314000433 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257314000434 DNA-binding site [nucleotide binding]; DNA binding site 257314000435 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 257314000436 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 257314000437 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 257314000438 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 257314000439 Ligand Binding Site [chemical binding]; other site 257314000440 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 257314000441 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 257314000442 membrane-bound complex binding site; other site 257314000443 hinge residues; other site 257314000444 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 257314000445 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 257314000446 Walker A/P-loop; other site 257314000447 ATP binding site [chemical binding]; other site 257314000448 Q-loop/lid; other site 257314000449 ABC transporter signature motif; other site 257314000450 Walker B; other site 257314000451 D-loop; other site 257314000452 H-loop/switch region; other site 257314000453 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 257314000454 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 257314000455 dimer interface [polypeptide binding]; other site 257314000456 conserved gate region; other site 257314000457 ABC-ATPase subunit interface; other site 257314000458 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 257314000459 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 257314000460 dimer interface [polypeptide binding]; other site 257314000461 conserved gate region; other site 257314000462 putative PBP binding loops; other site 257314000463 ABC-ATPase subunit interface; other site 257314000464 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 257314000465 active site 257314000466 metal binding site [ion binding]; metal-binding site 257314000467 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 257314000468 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 257314000469 active site 257314000470 dimer interface [polypeptide binding]; other site 257314000471 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 257314000472 Ligand Binding Site [chemical binding]; other site 257314000473 Molecular Tunnel; other site 257314000474 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 257314000475 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 257314000476 ATP-grasp domain; Region: ATP-grasp_4; cl17255 257314000477 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 257314000478 ATP cone domain; Region: ATP-cone; pfam03477 257314000479 Class III ribonucleotide reductase; Region: RNR_III; cd01675 257314000480 effector binding site; other site 257314000481 active site 257314000482 Zn binding site [ion binding]; other site 257314000483 glycine loop; other site 257314000484 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 257314000485 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 257314000486 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 257314000487 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 257314000488 Uncharacterized conserved protein [Function unknown]; Region: COG2461 257314000489 Family of unknown function (DUF438); Region: DUF438; pfam04282 257314000490 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 257314000491 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 257314000492 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257314000493 putative substrate translocation pore; other site 257314000494 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12858 257314000495 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 257314000496 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 257314000497 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 257314000498 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 257314000499 putative active site [active] 257314000500 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 257314000501 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 257314000502 putative substrate binding site [chemical binding]; other site 257314000503 putative ATP binding site [chemical binding]; other site 257314000504 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 257314000505 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 257314000506 active site 257314000507 P-loop; other site 257314000508 phosphorylation site [posttranslational modification] 257314000509 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 257314000510 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 257314000511 active site 257314000512 phosphorylation site [posttranslational modification] 257314000513 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 257314000514 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 257314000515 active site 257314000516 Zn binding site [ion binding]; other site 257314000517 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 257314000518 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 257314000519 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 257314000520 active site 257314000521 metal-binding site [ion binding] 257314000522 nucleotide-binding site [chemical binding]; other site 257314000523 K+ potassium transporter; Region: K_trans; pfam02705 257314000524 K+ potassium transporter; Region: K_trans; pfam02705 257314000525 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 257314000526 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 257314000527 Cpl-1 lysin (also known as Cpl-9 lysozyme / muramidase) is a bacterial cell wall endolysin encoded by the pneumococcal bacteriophage Cp-1, which cleaves the glycosidic N-acetylmuramoyl-(beta1,4)-N-acetylglucosamine bonds of the pneumococcal glycan chain; Region: GH25_Cpl1-like; cd06415 257314000528 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 257314000529 active site 257314000530 Bacterial SH3 domain; Region: SH3_5; pfam08460 257314000531 Bacterial SH3 domain; Region: SH3_5; pfam08460 257314000532 Bacterial SH3 domain; Region: SH3_5; pfam08460 257314000533 Bacterial SH3 domain; Region: SH3_5; pfam08460 257314000534 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 257314000535 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 257314000536 putative substrate binding site [chemical binding]; other site 257314000537 putative ATP binding site [chemical binding]; other site 257314000538 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 257314000539 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 257314000540 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 257314000541 TrkA-N domain; Region: TrkA_N; pfam02254 257314000542 TrkA-C domain; Region: TrkA_C; pfam02080 257314000543 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 257314000544 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 257314000545 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 257314000546 PAS domain; Region: PAS_10; pfam13596 257314000547 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 257314000548 catalytic core [active] 257314000549 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 257314000550 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 257314000551 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 257314000552 GtrA-like protein; Region: GtrA; pfam04138 257314000553 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 257314000554 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 257314000555 Ligand binding site; other site 257314000556 Putative Catalytic site; other site 257314000557 DXD motif; other site 257314000558 Sugar transport protein; Region: Sugar_transport; pfam06800 257314000559 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 257314000560 active site 257314000561 catalytic residues [active] 257314000562 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 257314000563 membrane protein; Provisional; Region: PRK14411 257314000564 Sulfatase; Region: Sulfatase; cl17466 257314000565 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 257314000566 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 257314000567 active site 257314000568 HIGH motif; other site 257314000569 dimer interface [polypeptide binding]; other site 257314000570 KMSKS motif; other site 257314000571 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 257314000572 RNA binding surface [nucleotide binding]; other site 257314000573 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 257314000574 trimer interface [polypeptide binding]; other site 257314000575 active site 257314000576 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 257314000577 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 257314000578 trimer interface [polypeptide binding]; other site 257314000579 active site 257314000580 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 257314000581 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 257314000582 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 257314000583 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 257314000584 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 257314000585 putative dimer interface [polypeptide binding]; other site 257314000586 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 257314000587 beta-galactosidase; Region: BGL; TIGR03356 257314000588 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 257314000589 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 257314000590 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 257314000591 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257314000592 DNA-binding site [nucleotide binding]; DNA binding site 257314000593 UTRA domain; Region: UTRA; pfam07702 257314000594 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 257314000595 Transposase; Region: DDE_Tnp_ISL3; pfam01610 257314000596 Domain of unknown function (DUF3284); Region: DUF3284; pfam11687 257314000597 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 257314000598 beta-galactosidase; Region: BGL; TIGR03356 257314000599 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 257314000600 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257314000601 DNA-binding site [nucleotide binding]; DNA binding site 257314000602 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 257314000603 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 257314000604 methionine cluster; other site 257314000605 active site 257314000606 phosphorylation site [posttranslational modification] 257314000607 metal binding site [ion binding]; metal-binding site 257314000608 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 257314000609 active site 257314000610 P-loop; other site 257314000611 phosphorylation site [posttranslational modification] 257314000612 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 257314000613 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 257314000614 beta-galactosidase; Region: BGL; TIGR03356 257314000615 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 257314000616 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 257314000617 nucleotide binding site [chemical binding]; other site 257314000618 CAAX protease self-immunity; Region: Abi; pfam02517 257314000619 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 257314000620 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 257314000621 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 257314000622 active site 257314000623 HIGH motif; other site 257314000624 dimer interface [polypeptide binding]; other site 257314000625 KMSKS motif; other site 257314000626 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 257314000627 catalytic motif [active] 257314000628 Zn binding site [ion binding]; other site 257314000629 Repair protein; Region: Repair_PSII; cl01535 257314000630 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 257314000631 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 257314000632 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 257314000633 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 257314000634 active site 257314000635 HIGH motif; other site 257314000636 KMSKS motif; other site 257314000637 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 257314000638 tRNA binding surface [nucleotide binding]; other site 257314000639 anticodon binding site; other site 257314000640 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 257314000641 dimer interface [polypeptide binding]; other site 257314000642 putative tRNA-binding site [nucleotide binding]; other site 257314000643 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 257314000644 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 257314000645 active site 257314000646 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 257314000647 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 257314000648 putative active site [active] 257314000649 putative metal binding site [ion binding]; other site 257314000650 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 257314000651 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 257314000652 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 257314000653 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 257314000654 pur operon repressor; Provisional; Region: PRK09213 257314000655 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 257314000656 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 257314000657 active site 257314000658 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 257314000659 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 257314000660 Substrate binding site; other site 257314000661 Mg++ binding site; other site 257314000662 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 257314000663 active site 257314000664 substrate binding site [chemical binding]; other site 257314000665 CoA binding site [chemical binding]; other site 257314000666 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 257314000667 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 257314000668 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 257314000669 active site 257314000670 Transcriptional regulators [Transcription]; Region: PurR; COG1609 257314000671 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 257314000672 DNA binding site [nucleotide binding] 257314000673 domain linker motif; other site 257314000674 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 257314000675 ligand binding site [chemical binding]; other site 257314000676 dimerization interface [polypeptide binding]; other site 257314000677 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 257314000678 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 257314000679 Ca binding site [ion binding]; other site 257314000680 active site 257314000681 catalytic site [active] 257314000682 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 257314000683 homodimer interface [polypeptide binding]; other site 257314000684 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 257314000685 active site 257314000686 homodimer interface [polypeptide binding]; other site 257314000687 catalytic site [active] 257314000688 maltose phosphorylase; Provisional; Region: PRK13807 257314000689 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 257314000690 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 257314000691 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 257314000692 beta-phosphoglucomutase; Region: bPGM; TIGR01990 257314000693 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 257314000694 motif II; other site 257314000695 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 257314000696 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 257314000697 Walker A/P-loop; other site 257314000698 ATP binding site [chemical binding]; other site 257314000699 Q-loop/lid; other site 257314000700 ABC transporter signature motif; other site 257314000701 Walker B; other site 257314000702 D-loop; other site 257314000703 H-loop/switch region; other site 257314000704 TOBE domain; Region: TOBE_2; pfam08402 257314000705 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 257314000706 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 257314000707 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 257314000708 dimer interface [polypeptide binding]; other site 257314000709 conserved gate region; other site 257314000710 putative PBP binding loops; other site 257314000711 ABC-ATPase subunit interface; other site 257314000712 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 257314000713 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 257314000714 dimer interface [polypeptide binding]; other site 257314000715 conserved gate region; other site 257314000716 putative PBP binding loops; other site 257314000717 ABC-ATPase subunit interface; other site 257314000718 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 257314000719 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 257314000720 Ca binding site [ion binding]; other site 257314000721 active site 257314000722 catalytic site [active] 257314000723 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 257314000724 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 257314000725 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 257314000726 Zn2+ binding site [ion binding]; other site 257314000727 Mg2+ binding site [ion binding]; other site 257314000728 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 257314000729 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 257314000730 CTP synthetase; Validated; Region: pyrG; PRK05380 257314000731 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 257314000732 Catalytic site [active] 257314000733 active site 257314000734 UTP binding site [chemical binding]; other site 257314000735 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 257314000736 active site 257314000737 putative oxyanion hole; other site 257314000738 catalytic triad [active] 257314000739 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 257314000740 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 257314000741 hinge; other site 257314000742 active site 257314000743 xanthine permease; Region: pbuX; TIGR03173 257314000744 Sulfate transporter family; Region: Sulfate_transp; pfam00916 257314000745 xanthine phosphoribosyltransferase; Validated; Region: PRK09219 257314000746 GMP synthase; Reviewed; Region: guaA; PRK00074 257314000747 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 257314000748 AMP/PPi binding site [chemical binding]; other site 257314000749 candidate oxyanion hole; other site 257314000750 catalytic triad [active] 257314000751 potential glutamine specificity residues [chemical binding]; other site 257314000752 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 257314000753 ATP Binding subdomain [chemical binding]; other site 257314000754 Ligand Binding sites [chemical binding]; other site 257314000755 Dimerization subdomain; other site 257314000756 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 257314000757 dimerization interface [polypeptide binding]; other site 257314000758 putative DNA binding site [nucleotide binding]; other site 257314000759 putative Zn2+ binding site [ion binding]; other site 257314000760 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 257314000761 arsenical-resistance protein; Region: acr3; TIGR00832 257314000762 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 257314000763 Low molecular weight phosphatase family; Region: LMWPc; cd00115 257314000764 active site 257314000765 Domain of unknown function (DUF3173); Region: DUF3173; pfam11372 257314000766 potential frameshift: common BLAST hit: gi|148544814|ref|YP_001272184.1| phage integrase family protein 257314000767 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 257314000768 Int/Topo IB signature motif; other site 257314000769 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257314000770 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257314000771 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 257314000772 substrate binding site [chemical binding]; other site 257314000773 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 257314000774 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 257314000775 non-specific DNA binding site [nucleotide binding]; other site 257314000776 salt bridge; other site 257314000777 sequence-specific DNA binding site [nucleotide binding]; other site 257314000778 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 257314000779 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 257314000780 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257314000781 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257314000782 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 257314000783 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 257314000784 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314000785 Walker A/P-loop; other site 257314000786 ATP binding site [chemical binding]; other site 257314000787 Q-loop/lid; other site 257314000788 ABC transporter signature motif; other site 257314000789 Walker B; other site 257314000790 D-loop; other site 257314000791 H-loop/switch region; other site 257314000792 LytTr DNA-binding domain; Region: LytTR; smart00850 257314000793 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 257314000794 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 257314000795 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257314000796 Coenzyme A binding pocket [chemical binding]; other site 257314000797 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 257314000798 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 257314000799 putative NAD(P) binding site [chemical binding]; other site 257314000800 Predicted transcriptional regulator [Transcription]; Region: COG1959 257314000801 Transcriptional regulator; Region: Rrf2; pfam02082 257314000802 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 257314000803 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 257314000804 DNA binding site [nucleotide binding] 257314000805 active site 257314000806 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 257314000807 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 257314000808 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 257314000809 dimer interface [polypeptide binding]; other site 257314000810 FMN binding site [chemical binding]; other site 257314000811 NADPH bind site [chemical binding]; other site 257314000812 Peptidase family C69; Region: Peptidase_C69; pfam03577 257314000813 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 257314000814 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 257314000815 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 257314000816 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 257314000817 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 257314000818 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 257314000819 HPr interaction site; other site 257314000820 glycerol kinase (GK) interaction site [polypeptide binding]; other site 257314000821 active site 257314000822 phosphorylation site [posttranslational modification] 257314000823 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 257314000824 Melibiase; Region: Melibiase; pfam02065 257314000825 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 257314000826 Alpha amylase catalytic domain found in sucrose phosphorylase (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase; cd11355 257314000827 active site 257314000828 homodimer interface [polypeptide binding]; other site 257314000829 catalytic site [active] 257314000830 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 257314000831 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 257314000832 dimer interface [polypeptide binding]; other site 257314000833 active site 257314000834 glycine-pyridoxal phosphate binding site [chemical binding]; other site 257314000835 folate binding site [chemical binding]; other site 257314000836 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 257314000837 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 257314000838 zinc binding site [ion binding]; other site 257314000839 putative ligand binding site [chemical binding]; other site 257314000840 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 257314000841 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257314000842 TM-ABC transporter signature motif; other site 257314000843 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 257314000844 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314000845 Walker A/P-loop; other site 257314000846 ATP binding site [chemical binding]; other site 257314000847 Q-loop/lid; other site 257314000848 ABC transporter signature motif; other site 257314000849 Walker B; other site 257314000850 D-loop; other site 257314000851 H-loop/switch region; other site 257314000852 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 257314000853 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 257314000854 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 257314000855 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 257314000856 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 257314000857 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 257314000858 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 257314000859 ATP binding site [chemical binding]; other site 257314000860 Mg++ binding site [ion binding]; other site 257314000861 motif III; other site 257314000862 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 257314000863 nucleotide binding region [chemical binding]; other site 257314000864 ATP-binding site [chemical binding]; other site 257314000865 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 257314000866 alanine racemase; Reviewed; Region: alr; PRK00053 257314000867 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 257314000868 active site 257314000869 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 257314000870 dimer interface [polypeptide binding]; other site 257314000871 substrate binding site [chemical binding]; other site 257314000872 catalytic residues [active] 257314000873 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 257314000874 FOG: CBS domain [General function prediction only]; Region: COG0517 257314000875 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 257314000876 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 257314000877 tetramer (dimer of dimers) interface [polypeptide binding]; other site 257314000878 NAD binding site [chemical binding]; other site 257314000879 dimer interface [polypeptide binding]; other site 257314000880 substrate binding site [chemical binding]; other site 257314000881 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 257314000882 Helix-turn-helix domain; Region: HTH_38; pfam13936 257314000883 Integrase core domain; Region: rve; pfam00665 257314000884 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 257314000885 putative active site [active] 257314000886 catalytic residue [active] 257314000887 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 257314000888 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 257314000889 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 257314000890 ATP binding site [chemical binding]; other site 257314000891 putative Mg++ binding site [ion binding]; other site 257314000892 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 257314000893 nucleotide binding region [chemical binding]; other site 257314000894 ATP-binding site [chemical binding]; other site 257314000895 TRCF domain; Region: TRCF; pfam03461 257314000896 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 257314000897 RNA binding surface [nucleotide binding]; other site 257314000898 Septum formation initiator; Region: DivIC; pfam04977 257314000899 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 257314000900 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 257314000901 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cd00164 257314000902 RNA binding site [nucleotide binding]; other site 257314000903 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 257314000904 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 257314000905 Ligand Binding Site [chemical binding]; other site 257314000906 FtsH Extracellular; Region: FtsH_ext; pfam06480 257314000907 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 257314000908 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 257314000909 Walker A motif; other site 257314000910 ATP binding site [chemical binding]; other site 257314000911 Walker B motif; other site 257314000912 arginine finger; other site 257314000913 Peptidase family M41; Region: Peptidase_M41; pfam01434 257314000914 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 257314000915 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 257314000916 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 257314000917 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 257314000918 dimerization interface [polypeptide binding]; other site 257314000919 domain crossover interface; other site 257314000920 redox-dependent activation switch; other site 257314000921 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 257314000922 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 257314000923 FMN binding site [chemical binding]; other site 257314000924 active site 257314000925 catalytic residues [active] 257314000926 substrate binding site [chemical binding]; other site 257314000927 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 257314000928 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 257314000929 dimer interface [polypeptide binding]; other site 257314000930 putative anticodon binding site; other site 257314000931 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 257314000932 motif 1; other site 257314000933 active site 257314000934 motif 2; other site 257314000935 motif 3; other site 257314000936 Lactobacillus johnsonii prophage Lj965 257314000937 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 257314000938 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 257314000939 Int/Topo IB signature motif; other site 257314000940 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 257314000941 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 257314000942 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 257314000943 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 257314000944 Domain of unknown function (DUF955); Region: DUF955; pfam06114 257314000945 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 257314000946 non-specific DNA binding site [nucleotide binding]; other site 257314000947 salt bridge; other site 257314000948 sequence-specific DNA binding site [nucleotide binding]; other site 257314000949 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 257314000950 non-specific DNA binding site [nucleotide binding]; other site 257314000951 salt bridge; other site 257314000952 sequence-specific DNA binding site [nucleotide binding]; other site 257314000953 AntA/AntB antirepressor; Region: AntA; pfam08346 257314000954 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 257314000955 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 257314000956 Helix-turn-helix domain; Region: HTH_17; pfam12728 257314000957 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 257314000958 Protein of unknown function (DUF1351); Region: DUF1351; pfam07083 257314000959 ERF superfamily; Region: ERF; pfam04404 257314000960 Helix-turn-helix domain; Region: HTH_36; pfam13730 257314000961 Prophage antirepressor [Transcription]; Region: COG3617 257314000962 BRO family, N-terminal domain; Region: Bro-N; smart01040 257314000963 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 257314000964 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 257314000965 Uncharacterized conserved protein [Function unknown]; Region: COG4933 257314000966 Terminase small subunit; Region: Terminase_2; pfam03592 257314000967 phage terminase, large subunit, PBSX family; Region: phage_term_2; TIGR01547 257314000968 Terminase-like family; Region: Terminase_6; pfam03237 257314000969 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 257314000970 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 257314000971 Protein of unknown function (DUF464); Region: DUF464; pfam04327 257314000972 phage putative head morphogenesis protein, SPP1 gp7 family; Region: phageSPP1_gp7; TIGR01641 257314000973 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 257314000974 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 257314000975 Head-Tail Connector Protein gp15 of Bacteriophage SPP1 and similar proteins; Region: gp15; cd08055 257314000976 Phage tail protein; Region: Phage_tail_3; pfam08813 257314000977 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 257314000978 N-acetyl-D-glucosamine binding site [chemical binding]; other site 257314000979 catalytic residue [active] 257314000980 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 257314000981 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 257314000982 phage holin, LL-H family; Region: holin_LLH; TIGR01673 257314000983 Cpl-1 lysin (also known as Cpl-9 lysozyme / muramidase) is a bacterial cell wall endolysin encoded by the pneumococcal bacteriophage Cp-1, which cleaves the glycosidic N-acetylmuramoyl-(beta1,4)-N-acetylglucosamine bonds of the pneumococcal glycan chain; Region: GH25_Cpl1-like; cd06415 257314000984 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 257314000985 active site 257314000986 Bacterial SH3 domain; Region: SH3_5; pfam08460 257314000987 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 257314000988 Clp amino terminal domain; Region: Clp_N; pfam02861 257314000989 Clp amino terminal domain; Region: Clp_N; pfam02861 257314000990 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 257314000991 Walker A motif; other site 257314000992 ATP binding site [chemical binding]; other site 257314000993 Walker B motif; other site 257314000994 arginine finger; other site 257314000995 UvrB/uvrC motif; Region: UVR; pfam02151 257314000996 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 257314000997 Walker A motif; other site 257314000998 ATP binding site [chemical binding]; other site 257314000999 Walker B motif; other site 257314001000 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 257314001001 DNA-directed RNA polymerase, beta subunit; Region: rpoB; TIGR02013 257314001002 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 257314001003 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 257314001004 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 257314001005 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 257314001006 RPB1 interaction site [polypeptide binding]; other site 257314001007 RPB10 interaction site [polypeptide binding]; other site 257314001008 RPB11 interaction site [polypeptide binding]; other site 257314001009 RPB3 interaction site [polypeptide binding]; other site 257314001010 RPB12 interaction site [polypeptide binding]; other site 257314001011 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 257314001012 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 257314001013 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 257314001014 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 257314001015 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 257314001016 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 257314001017 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 257314001018 DNA binding site [nucleotide binding] 257314001019 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 257314001020 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 257314001021 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 257314001022 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 257314001023 S17 interaction site [polypeptide binding]; other site 257314001024 S8 interaction site; other site 257314001025 16S rRNA interaction site [nucleotide binding]; other site 257314001026 streptomycin interaction site [chemical binding]; other site 257314001027 23S rRNA interaction site [nucleotide binding]; other site 257314001028 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 257314001029 30S ribosomal protein S7; Validated; Region: PRK05302 257314001030 elongation factor G; Reviewed; Region: PRK12739 257314001031 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 257314001032 G1 box; other site 257314001033 putative GEF interaction site [polypeptide binding]; other site 257314001034 GTP/Mg2+ binding site [chemical binding]; other site 257314001035 Switch I region; other site 257314001036 G2 box; other site 257314001037 G3 box; other site 257314001038 Switch II region; other site 257314001039 G4 box; other site 257314001040 G5 box; other site 257314001041 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 257314001042 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 257314001043 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 257314001044 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 257314001045 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 257314001046 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 257314001047 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 257314001048 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 257314001049 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 257314001050 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 257314001051 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 257314001052 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 257314001053 putative translocon binding site; other site 257314001054 protein-rRNA interface [nucleotide binding]; other site 257314001055 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 257314001056 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 257314001057 G-X-X-G motif; other site 257314001058 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 257314001059 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 257314001060 23S rRNA interface [nucleotide binding]; other site 257314001061 5S rRNA interface [nucleotide binding]; other site 257314001062 putative antibiotic binding site [chemical binding]; other site 257314001063 L25 interface [polypeptide binding]; other site 257314001064 L27 interface [polypeptide binding]; other site 257314001065 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 257314001066 23S rRNA interface [nucleotide binding]; other site 257314001067 putative translocon interaction site; other site 257314001068 signal recognition particle (SRP54) interaction site; other site 257314001069 L23 interface [polypeptide binding]; other site 257314001070 trigger factor interaction site; other site 257314001071 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 257314001072 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 257314001073 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 257314001074 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 257314001075 RNA binding site [nucleotide binding]; other site 257314001076 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 257314001077 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 257314001078 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 257314001079 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 257314001080 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 257314001081 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 257314001082 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 257314001083 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 257314001084 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 257314001085 23S rRNA interface [nucleotide binding]; other site 257314001086 L21e interface [polypeptide binding]; other site 257314001087 5S rRNA interface [nucleotide binding]; other site 257314001088 L27 interface [polypeptide binding]; other site 257314001089 L5 interface [polypeptide binding]; other site 257314001090 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 257314001091 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 257314001092 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 257314001093 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 257314001094 23S rRNA binding site [nucleotide binding]; other site 257314001095 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 257314001096 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 257314001097 SecY translocase; Region: SecY; pfam00344 257314001098 adenylate kinase; Reviewed; Region: adk; PRK00279 257314001099 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 257314001100 AMP-binding site [chemical binding]; other site 257314001101 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 257314001102 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 257314001103 rRNA binding site [nucleotide binding]; other site 257314001104 predicted 30S ribosome binding site; other site 257314001105 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 257314001106 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 257314001107 30S ribosomal protein S13; Region: bact_S13; TIGR03631 257314001108 30S ribosomal protein S11; Validated; Region: PRK05309 257314001109 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 257314001110 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 257314001111 alphaNTD homodimer interface [polypeptide binding]; other site 257314001112 alphaNTD - beta interaction site [polypeptide binding]; other site 257314001113 alphaNTD - beta' interaction site [polypeptide binding]; other site 257314001114 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 257314001115 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 257314001116 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13640 257314001117 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 257314001118 Walker A/P-loop; other site 257314001119 ATP binding site [chemical binding]; other site 257314001120 Q-loop/lid; other site 257314001121 ABC transporter signature motif; other site 257314001122 Walker B; other site 257314001123 D-loop; other site 257314001124 H-loop/switch region; other site 257314001125 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13641 257314001126 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 257314001127 Walker A/P-loop; other site 257314001128 ATP binding site [chemical binding]; other site 257314001129 Q-loop/lid; other site 257314001130 ABC transporter signature motif; other site 257314001131 Walker B; other site 257314001132 D-loop; other site 257314001133 H-loop/switch region; other site 257314001134 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 257314001135 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 257314001136 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 257314001137 dimerization interface 3.5A [polypeptide binding]; other site 257314001138 active site 257314001139 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 257314001140 23S rRNA interface [nucleotide binding]; other site 257314001141 L3 interface [polypeptide binding]; other site 257314001142 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 257314001143 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 257314001144 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 257314001145 Walker A/P-loop; other site 257314001146 ATP binding site [chemical binding]; other site 257314001147 Q-loop/lid; other site 257314001148 ABC transporter signature motif; other site 257314001149 Walker B; other site 257314001150 D-loop; other site 257314001151 H-loop/switch region; other site 257314001152 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257314001153 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 257314001154 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314001155 Walker A/P-loop; other site 257314001156 ATP binding site [chemical binding]; other site 257314001157 Q-loop/lid; other site 257314001158 ABC transporter signature motif; other site 257314001159 Walker B; other site 257314001160 D-loop; other site 257314001161 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 257314001162 catalytic core [active] 257314001163 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 257314001164 Helix-turn-helix domain; Region: HTH_38; pfam13936 257314001165 Integrase core domain; Region: rve; pfam00665 257314001166 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257314001167 active site 257314001168 DJ-1 family protein; Region: not_thiJ; TIGR01383 257314001169 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 257314001170 conserved cys residue [active] 257314001171 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 257314001172 catalytic core [active] 257314001173 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 257314001174 dimerization interface [polypeptide binding]; other site 257314001175 putative DNA binding site [nucleotide binding]; other site 257314001176 putative Zn2+ binding site [ion binding]; other site 257314001177 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 257314001178 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 257314001179 iron-sulfur cluster-binding protein; Region: TIGR00273 257314001180 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 257314001181 catalytic core [active] 257314001182 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 257314001183 AAA domain; Region: AAA_33; pfam13671 257314001184 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 257314001185 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 257314001186 accessory Sec system translocase SecY2; Region: acc_sec_Y2; TIGR02920 257314001187 SecY translocase; Region: SecY; pfam00344 257314001188 accessory Sec system protein Asp1; Region: acc_sec_asp1; TIGR03713 257314001189 accessory Sec system protein Asp2; Region: acc_sec_asp2; TIGR03712 257314001190 accessory Sec system protein Asp3; Region: acc_sec_asp3; TIGR03711 257314001191 accessory Sec system translocase SecA2; Region: secA2; TIGR03714 257314001192 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 257314001193 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 257314001194 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 257314001195 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 257314001196 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 257314001197 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 257314001198 active site 257314001199 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 257314001200 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 257314001201 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 257314001202 trimer interface [polypeptide binding]; other site 257314001203 active site 257314001204 G bulge; other site 257314001205 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 257314001206 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 257314001207 trimer interface [polypeptide binding]; other site 257314001208 active site 257314001209 DNA repair protein RadA; Provisional; Region: PRK11823 257314001210 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 257314001211 Walker A motif/ATP binding site; other site 257314001212 ATP binding site [chemical binding]; other site 257314001213 Walker B motif; other site 257314001214 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 257314001215 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 257314001216 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 257314001217 active site 257314001218 HIGH motif; other site 257314001219 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 257314001220 active site 257314001221 KMSKS motif; other site 257314001222 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 257314001223 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 257314001224 active site 257314001225 HIGH motif; other site 257314001226 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 257314001227 KMSKS motif; other site 257314001228 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 257314001229 tRNA binding surface [nucleotide binding]; other site 257314001230 anticodon binding site; other site 257314001231 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 257314001232 active site 257314001233 metal binding site [ion binding]; metal-binding site 257314001234 dimerization interface [polypeptide binding]; other site 257314001235 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 257314001236 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 257314001237 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 257314001238 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 257314001239 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 257314001240 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 257314001241 N- and C-terminal domain interface [polypeptide binding]; other site 257314001242 active site 257314001243 catalytic site [active] 257314001244 metal binding site [ion binding]; metal-binding site 257314001245 carbohydrate binding site [chemical binding]; other site 257314001246 ATP binding site [chemical binding]; other site 257314001247 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 257314001248 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 257314001249 TPP-binding site; other site 257314001250 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 257314001251 PYR/PP interface [polypeptide binding]; other site 257314001252 dimer interface [polypeptide binding]; other site 257314001253 TPP binding site [chemical binding]; other site 257314001254 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 257314001255 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 257314001256 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257314001257 putative substrate translocation pore; other site 257314001258 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 257314001259 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 257314001260 substrate binding pocket [chemical binding]; other site 257314001261 chain length determination region; other site 257314001262 substrate-Mg2+ binding site; other site 257314001263 catalytic residues [active] 257314001264 aspartate-rich region 1; other site 257314001265 active site lid residues [active] 257314001266 aspartate-rich region 2; other site 257314001267 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 257314001268 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 257314001269 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 257314001270 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 257314001271 putative homodimer interface [polypeptide binding]; other site 257314001272 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 257314001273 heterodimer interface [polypeptide binding]; other site 257314001274 homodimer interface [polypeptide binding]; other site 257314001275 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 257314001276 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 257314001277 23S rRNA interface [nucleotide binding]; other site 257314001278 L7/L12 interface [polypeptide binding]; other site 257314001279 putative thiostrepton binding site; other site 257314001280 L25 interface [polypeptide binding]; other site 257314001281 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 257314001282 mRNA/rRNA interface [nucleotide binding]; other site 257314001283 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 257314001284 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 257314001285 dimer interface [polypeptide binding]; other site 257314001286 conserved gate region; other site 257314001287 putative PBP binding loops; other site 257314001288 ABC-ATPase subunit interface; other site 257314001289 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 257314001290 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314001291 Walker A/P-loop; other site 257314001292 ATP binding site [chemical binding]; other site 257314001293 Q-loop/lid; other site 257314001294 ABC transporter signature motif; other site 257314001295 Walker B; other site 257314001296 D-loop; other site 257314001297 H-loop/switch region; other site 257314001298 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 257314001299 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 257314001300 substrate binding pocket [chemical binding]; other site 257314001301 membrane-bound complex binding site; other site 257314001302 hinge residues; other site 257314001303 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 257314001304 23S rRNA interface [nucleotide binding]; other site 257314001305 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 257314001306 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 257314001307 core dimer interface [polypeptide binding]; other site 257314001308 peripheral dimer interface [polypeptide binding]; other site 257314001309 L10 interface [polypeptide binding]; other site 257314001310 L11 interface [polypeptide binding]; other site 257314001311 putative EF-Tu interaction site [polypeptide binding]; other site 257314001312 putative EF-G interaction site [polypeptide binding]; other site 257314001313 Ion transport protein; Region: Ion_trans; pfam00520 257314001314 Ion channel; Region: Ion_trans_2; pfam07885 257314001315 Methyltransferase domain; Region: Methyltransf_31; pfam13847 257314001316 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 257314001317 S-adenosylmethionine binding site [chemical binding]; other site 257314001318 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 257314001319 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 257314001320 nucleoside/Zn binding site; other site 257314001321 dimer interface [polypeptide binding]; other site 257314001322 catalytic motif [active] 257314001323 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 257314001324 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 257314001325 Walker A motif; other site 257314001326 ATP binding site [chemical binding]; other site 257314001327 Walker B motif; other site 257314001328 hypothetical protein; Validated; Region: PRK00153 257314001329 recombination protein RecR; Reviewed; Region: recR; PRK00076 257314001330 RecR protein; Region: RecR; pfam02132 257314001331 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 257314001332 putative active site [active] 257314001333 putative metal-binding site [ion binding]; other site 257314001334 tetramer interface [polypeptide binding]; other site 257314001335 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 257314001336 thymidylate kinase; Validated; Region: tmk; PRK00698 257314001337 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 257314001338 TMP-binding site; other site 257314001339 ATP-binding site [chemical binding]; other site 257314001340 Protein of unknown function (DUF970); Region: DUF970; cl17525 257314001341 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 257314001342 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 257314001343 Predicted methyltransferases [General function prediction only]; Region: COG0313 257314001344 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 257314001345 putative SAM binding site [chemical binding]; other site 257314001346 putative homodimer interface [polypeptide binding]; other site 257314001347 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 257314001348 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 257314001349 active site 257314001350 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 257314001351 active site 2 [active] 257314001352 active site 1 [active] 257314001353 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 257314001354 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 257314001355 Glycoprotease family; Region: Peptidase_M22; pfam00814 257314001356 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 257314001357 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257314001358 Coenzyme A binding pocket [chemical binding]; other site 257314001359 UGMP family protein; Validated; Region: PRK09604 257314001360 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 257314001361 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 257314001362 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 257314001363 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 257314001364 Cl- selectivity filter; other site 257314001365 Cl- binding residues [ion binding]; other site 257314001366 pore gating glutamate residue; other site 257314001367 dimer interface [polypeptide binding]; other site 257314001368 H+/Cl- coupling transport residue; other site 257314001369 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 257314001370 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 257314001371 active site 257314001372 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 257314001373 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 257314001374 GDP-binding site [chemical binding]; other site 257314001375 ACT binding site; other site 257314001376 IMP binding site; other site 257314001377 adenylosuccinate lyase; Provisional; Region: PRK07492 257314001378 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 257314001379 tetramer interface [polypeptide binding]; other site 257314001380 active site 257314001381 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 257314001382 active site 257314001383 Ap4A binding cleft/pocket [chemical binding]; other site 257314001384 P4 phosphate binding site; other site 257314001385 nudix motif; other site 257314001386 putative P2/P3 phosphate binding site [ion binding]; other site 257314001387 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 257314001388 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 257314001389 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 257314001390 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 257314001391 active site 257314001392 phosphorylation site [posttranslational modification] 257314001393 intermolecular recognition site; other site 257314001394 dimerization interface [polypeptide binding]; other site 257314001395 LytTr DNA-binding domain; Region: LytTR; pfam04397 257314001396 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257314001397 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257314001398 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 257314001399 nudix motif; other site 257314001400 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 257314001401 non-specific DNA binding site [nucleotide binding]; other site 257314001402 salt bridge; other site 257314001403 sequence-specific DNA binding site [nucleotide binding]; other site 257314001404 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 257314001405 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 257314001406 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 257314001407 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314001408 Walker A/P-loop; other site 257314001409 ATP binding site [chemical binding]; other site 257314001410 Q-loop/lid; other site 257314001411 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257314001412 ABC transporter; Region: ABC_tran_2; pfam12848 257314001413 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257314001414 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 257314001415 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 257314001416 CoA binding domain; Region: CoA_binding; pfam02629 257314001417 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 257314001418 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 257314001419 LytTr DNA-binding domain; Region: LytTR; smart00850 257314001420 Protein of unknown function (DUF2663); Region: DUF2663; pfam10864 257314001421 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 257314001422 oligomerisation interface [polypeptide binding]; other site 257314001423 mobile loop; other site 257314001424 roof hairpin; other site 257314001425 chaperonin GroL; Region: GroEL; TIGR02348 257314001426 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 257314001427 ring oligomerisation interface [polypeptide binding]; other site 257314001428 ATP/Mg binding site [chemical binding]; other site 257314001429 stacking interactions; other site 257314001430 hinge regions; other site 257314001431 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 257314001432 non-specific DNA binding site [nucleotide binding]; other site 257314001433 salt bridge; other site 257314001434 sequence-specific DNA binding site [nucleotide binding]; other site 257314001435 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 257314001436 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 257314001437 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 257314001438 Walker A/P-loop; other site 257314001439 ATP binding site [chemical binding]; other site 257314001440 Q-loop/lid; other site 257314001441 ABC transporter signature motif; other site 257314001442 Walker B; other site 257314001443 D-loop; other site 257314001444 H-loop/switch region; other site 257314001445 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 257314001446 MutS domain I; Region: MutS_I; pfam01624 257314001447 MutS domain II; Region: MutS_II; pfam05188 257314001448 MutS domain III; Region: MutS_III; pfam05192 257314001449 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 257314001450 Walker A/P-loop; other site 257314001451 ATP binding site [chemical binding]; other site 257314001452 Q-loop/lid; other site 257314001453 ABC transporter signature motif; other site 257314001454 Walker B; other site 257314001455 D-loop; other site 257314001456 H-loop/switch region; other site 257314001457 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 257314001458 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 257314001459 ATP binding site [chemical binding]; other site 257314001460 Mg2+ binding site [ion binding]; other site 257314001461 G-X-G motif; other site 257314001462 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 257314001463 ATP binding site [chemical binding]; other site 257314001464 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 257314001465 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 257314001466 RuvA N terminal domain; Region: RuvA_N; pfam01330 257314001467 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 257314001468 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 257314001469 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 257314001470 Walker A motif; other site 257314001471 ATP binding site [chemical binding]; other site 257314001472 Walker B motif; other site 257314001473 arginine finger; other site 257314001474 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 257314001475 Preprotein translocase subunit; Region: YajC; cl00806 257314001476 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 257314001477 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 257314001478 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 257314001479 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 257314001480 active site 257314001481 DNA polymerase IV; Validated; Region: PRK02406 257314001482 DNA binding site [nucleotide binding] 257314001483 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 257314001484 DHH family; Region: DHH; pfam01368 257314001485 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 257314001486 DEAD-like helicases superfamily; Region: DEXDc; smart00487 257314001487 ATP binding site [chemical binding]; other site 257314001488 putative Mg++ binding site [ion binding]; other site 257314001489 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 257314001490 nucleotide binding region [chemical binding]; other site 257314001491 ATP-binding site [chemical binding]; other site 257314001492 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 257314001493 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 257314001494 motif 1; other site 257314001495 active site 257314001496 motif 2; other site 257314001497 motif 3; other site 257314001498 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 257314001499 DHHA1 domain; Region: DHHA1; pfam02272 257314001500 hypothetical protein; Provisional; Region: PRK05473 257314001501 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 257314001502 hypothetical protein; Provisional; Region: PRK13678 257314001503 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 257314001504 Colicin V production protein; Region: Colicin_V; pfam02674 257314001505 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 257314001506 MutS domain III; Region: MutS_III; pfam05192 257314001507 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314001508 Walker A/P-loop; other site 257314001509 ATP binding site [chemical binding]; other site 257314001510 Q-loop/lid; other site 257314001511 ABC transporter signature motif; other site 257314001512 Walker B; other site 257314001513 D-loop; other site 257314001514 H-loop/switch region; other site 257314001515 Smr domain; Region: Smr; pfam01713 257314001516 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 257314001517 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 257314001518 catalytic residues [active] 257314001519 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 257314001520 glutamate racemase; Provisional; Region: PRK00865 257314001521 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 257314001522 active site 257314001523 dimerization interface [polypeptide binding]; other site 257314001524 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 257314001525 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 257314001526 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 257314001527 Rib/alpha-like repeat; Region: Rib; cl07159 257314001528 MucBP domain; Region: MucBP; pfam06458 257314001529 MucBP domain; Region: MucBP; pfam06458 257314001530 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 257314001531 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 257314001532 propionate/acetate kinase; Provisional; Region: PRK12379 257314001533 potential frameshift: common BLAST hit: gi|116629103|ref|YP_814275.1| small-conductance mechanosensitive channel 257314001534 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 257314001535 Mechanosensitive ion channel; Region: MS_channel; pfam00924 257314001536 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 257314001537 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 257314001538 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 257314001539 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 257314001540 active site 257314001541 catabolite control protein A; Region: ccpA; TIGR01481 257314001542 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 257314001543 DNA binding site [nucleotide binding] 257314001544 domain linker motif; other site 257314001545 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 257314001546 dimerization interface [polypeptide binding]; other site 257314001547 effector binding site; other site 257314001548 Transglycosylase; Region: Transgly; pfam00912 257314001549 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 257314001550 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 257314001551 dipeptidase PepV; Reviewed; Region: PRK07318 257314001552 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 257314001553 active site 257314001554 metal binding site [ion binding]; metal-binding site 257314001555 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 257314001556 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 257314001557 active site 257314001558 catalytic site [active] 257314001559 metal binding site [ion binding]; metal-binding site 257314001560 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 257314001561 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 257314001562 active site 257314001563 metal binding site [ion binding]; metal-binding site 257314001564 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 257314001565 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 257314001566 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 257314001567 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 257314001568 active site 257314001569 motif I; other site 257314001570 motif II; other site 257314001571 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 257314001572 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 257314001573 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 257314001574 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 257314001575 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 257314001576 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 257314001577 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 257314001578 general stress protein 13; Validated; Region: PRK08059 257314001579 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 257314001580 RNA binding site [nucleotide binding]; other site 257314001581 S-adenosylmethionine synthetase; Validated; Region: PRK05250 257314001582 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 257314001583 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 257314001584 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 257314001585 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 257314001586 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257314001587 putative substrate translocation pore; other site 257314001588 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 257314001589 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 257314001590 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 257314001591 active site 257314001592 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 257314001593 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 257314001594 HIGH motif; other site 257314001595 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 257314001596 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 257314001597 active site 257314001598 KMSKS motif; other site 257314001599 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 257314001600 tRNA binding surface [nucleotide binding]; other site 257314001601 stage V sporulation protein B; Region: spore_V_B; TIGR02900 257314001602 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 257314001603 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 257314001604 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 257314001605 putative substrate binding site [chemical binding]; other site 257314001606 putative ATP binding site [chemical binding]; other site 257314001607 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 257314001608 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 257314001609 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 257314001610 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 257314001611 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 257314001612 active site 257314001613 HIGH motif; other site 257314001614 KMSK motif region; other site 257314001615 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 257314001616 tRNA binding surface [nucleotide binding]; other site 257314001617 anticodon binding site; other site 257314001618 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 257314001619 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 257314001620 intersubunit interface [polypeptide binding]; other site 257314001621 active site 257314001622 zinc binding site [ion binding]; other site 257314001623 Na+ binding site [ion binding]; other site 257314001624 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 257314001625 active site 257314001626 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 257314001627 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 257314001628 catalytic triad [active] 257314001629 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 257314001630 NADH(P)-binding; Region: NAD_binding_10; pfam13460 257314001631 NAD(P) binding site [chemical binding]; other site 257314001632 putative active site [active] 257314001633 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 257314001634 Probable transposase; Region: OrfB_IS605; pfam01385 257314001635 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 257314001636 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 257314001637 Sec23/Sec24 zinc finger; Region: zf-Sec23_Sec24; pfam04810 257314001638 Transposase IS200 like; Region: Y1_Tnp; pfam01797 257314001639 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 257314001640 GAF domain; Region: GAF_2; pfam13185 257314001641 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 257314001642 Cl- selectivity filter; other site 257314001643 Cl- binding residues [ion binding]; other site 257314001644 pore gating glutamate residue; other site 257314001645 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 257314001646 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 257314001647 Predicted permeases [General function prediction only]; Region: COG0679 257314001648 CAAX protease self-immunity; Region: Abi; pfam02517 257314001649 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 257314001650 amphipathic channel; other site 257314001651 Asn-Pro-Ala signature motifs; other site 257314001652 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 257314001653 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257314001654 putative substrate translocation pore; other site 257314001655 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 257314001656 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 257314001657 putative substrate translocation pore; other site 257314001658 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257314001659 Coenzyme A binding pocket [chemical binding]; other site 257314001660 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 257314001661 AAA ATPase domain; Region: AAA_16; pfam13191 257314001662 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 257314001663 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 257314001664 active site 257314001665 motif I; other site 257314001666 motif II; other site 257314001667 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 257314001668 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 257314001669 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 257314001670 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 257314001671 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 257314001672 active site 257314001673 motif I; other site 257314001674 motif II; other site 257314001675 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 257314001676 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 257314001677 Helix-turn-helix domain; Region: HTH_18; pfam12833 257314001678 uracil transporter; Provisional; Region: PRK10720 257314001679 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 257314001680 AAA ATPase domain; Region: AAA_16; pfam13191 257314001681 AAA domain; Region: AAA_22; pfam13401 257314001682 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 257314001683 catalytic core [active] 257314001684 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 257314001685 glutaminase A; Region: Gln_ase; TIGR03814 257314001686 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 257314001687 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 257314001688 active site 257314001689 Phospholipase B; Region: Phospholip_B; pfam04916 257314001690 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 257314001691 trimer interface [polypeptide binding]; other site 257314001692 active site 257314001693 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 257314001694 Peptidase family C69; Region: Peptidase_C69; pfam03577 257314001695 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 257314001696 trimer interface [polypeptide binding]; other site 257314001697 active site 257314001698 G bulge; other site 257314001699 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 257314001700 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 257314001701 drug efflux system protein MdtG; Provisional; Region: PRK09874 257314001702 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 257314001703 putative substrate translocation pore; other site 257314001704 MarR family; Region: MarR_2; pfam12802 257314001705 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 257314001706 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 257314001707 oligomer interface [polypeptide binding]; other site 257314001708 active site 257314001709 metal binding site [ion binding]; metal-binding site 257314001710 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 257314001711 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 257314001712 Walker A/P-loop; other site 257314001713 ATP binding site [chemical binding]; other site 257314001714 Q-loop/lid; other site 257314001715 ABC transporter signature motif; other site 257314001716 Walker B; other site 257314001717 D-loop; other site 257314001718 H-loop/switch region; other site 257314001719 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 257314001720 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 257314001721 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 257314001722 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 257314001723 Spore germination protein; Region: Spore_permease; cl17796 257314001724 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 257314001725 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 257314001726 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 257314001727 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 257314001728 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 257314001729 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 257314001730 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 257314001731 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 257314001732 nucleotide binding site [chemical binding]; other site 257314001733 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 257314001734 beta-galactosidase; Region: BGL; TIGR03356 257314001735 putative alpha-glucosidase; Provisional; Region: PRK10658 257314001736 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 257314001737 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 257314001738 active site 257314001739 homotrimer interface [polypeptide binding]; other site 257314001740 catalytic site [active] 257314001741 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 257314001742 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 257314001743 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 257314001744 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 257314001745 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 257314001746 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 257314001747 active site 257314001748 phosphorylation site [posttranslational modification] 257314001749 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 257314001750 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 257314001751 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 257314001752 active pocket/dimerization site; other site 257314001753 active site 257314001754 phosphorylation site [posttranslational modification] 257314001755 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 257314001756 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 257314001757 Ca binding site [ion binding]; other site 257314001758 active site 257314001759 catalytic site [active] 257314001760 Transcriptional regulators [Transcription]; Region: PurR; COG1609 257314001761 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 257314001762 DNA binding site [nucleotide binding] 257314001763 domain linker motif; other site 257314001764 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 257314001765 dimerization interface [polypeptide binding]; other site 257314001766 ligand binding site [chemical binding]; other site 257314001767 sodium binding site [ion binding]; other site 257314001768 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 257314001769 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 257314001770 putative substrate translocation pore; other site 257314001771 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 257314001772 Peptidase family C69; Region: Peptidase_C69; pfam03577 257314001773 benzoate transport; Region: 2A0115; TIGR00895 257314001774 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 257314001775 putative substrate translocation pore; other site 257314001776 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 257314001777 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 257314001778 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257314001779 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314001780 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 257314001781 Walker A/P-loop; other site 257314001782 ATP binding site [chemical binding]; other site 257314001783 Q-loop/lid; other site 257314001784 ABC transporter signature motif; other site 257314001785 Walker B; other site 257314001786 D-loop; other site 257314001787 H-loop/switch region; other site 257314001788 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 257314001789 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257314001790 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 257314001791 Walker A/P-loop; other site 257314001792 ATP binding site [chemical binding]; other site 257314001793 Q-loop/lid; other site 257314001794 ABC transporter signature motif; other site 257314001795 Walker B; other site 257314001796 D-loop; other site 257314001797 H-loop/switch region; other site 257314001798 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 257314001799 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 257314001800 substrate binding pocket [chemical binding]; other site 257314001801 membrane-bound complex binding site; other site 257314001802 hinge residues; other site 257314001803 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 257314001804 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 257314001805 Walker A/P-loop; other site 257314001806 ATP binding site [chemical binding]; other site 257314001807 Q-loop/lid; other site 257314001808 ABC transporter signature motif; other site 257314001809 Walker B; other site 257314001810 D-loop; other site 257314001811 H-loop/switch region; other site 257314001812 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 257314001813 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 257314001814 substrate binding pocket [chemical binding]; other site 257314001815 membrane-bound complex binding site; other site 257314001816 hinge residues; other site 257314001817 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 257314001818 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 257314001819 dimer interface [polypeptide binding]; other site 257314001820 conserved gate region; other site 257314001821 putative PBP binding loops; other site 257314001822 ABC-ATPase subunit interface; other site 257314001823 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 257314001824 dimer interface [polypeptide binding]; other site 257314001825 conserved gate region; other site 257314001826 putative PBP binding loops; other site 257314001827 ABC-ATPase subunit interface; other site 257314001828 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 257314001829 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 257314001830 Ca binding site [ion binding]; other site 257314001831 active site 257314001832 catalytic site [active] 257314001833 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257314001834 DNA-binding site [nucleotide binding]; DNA binding site 257314001835 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 257314001836 UTRA domain; Region: UTRA; pfam07702 257314001837 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 257314001838 HPr interaction site; other site 257314001839 glycerol kinase (GK) interaction site [polypeptide binding]; other site 257314001840 active site 257314001841 phosphorylation site [posttranslational modification] 257314001842 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 257314001843 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 257314001844 active site turn [active] 257314001845 phosphorylation site [posttranslational modification] 257314001846 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 257314001847 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 257314001848 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 257314001849 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 257314001850 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 257314001851 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 257314001852 Sugar specificity; other site 257314001853 Pyrimidine base specificity; other site 257314001854 ATP-binding site [chemical binding]; other site 257314001855 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 257314001856 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 257314001857 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 257314001858 Probable transposase; Region: OrfB_IS605; pfam01385 257314001859 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 257314001860 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 257314001861 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 257314001862 active site 257314001863 phosphorylation site [posttranslational modification] 257314001864 intermolecular recognition site; other site 257314001865 dimerization interface [polypeptide binding]; other site 257314001866 LytTr DNA-binding domain; Region: LytTR; pfam04397 257314001867 A sub-family of peptidase family C39. 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...; Region: Peptidase_C39B; cd02418 257314001868 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 257314001869 putative active site [active] 257314001870 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257314001871 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314001872 Walker A/P-loop; other site 257314001873 ATP binding site [chemical binding]; other site 257314001874 Q-loop/lid; other site 257314001875 ABC transporter signature motif; other site 257314001876 Walker B; other site 257314001877 D-loop; other site 257314001878 H-loop/switch region; other site 257314001879 HlyD family secretion protein; Region: HlyD_3; pfam13437 257314001880 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 257314001881 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 257314001882 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 257314001883 Helix-turn-helix domain; Region: HTH_38; pfam13936 257314001884 Integrase core domain; Region: rve; pfam00665 257314001885 LytTr DNA-binding domain; Region: LytTR; pfam04397 257314001886 A sub-family of peptidase family C39. 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...; Region: Peptidase_C39B; cd02418 257314001887 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 257314001888 putative active site [active] 257314001889 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257314001890 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314001891 Walker A/P-loop; other site 257314001892 ATP binding site [chemical binding]; other site 257314001893 Q-loop/lid; other site 257314001894 ABC transporter signature motif; other site 257314001895 Walker B; other site 257314001896 D-loop; other site 257314001897 H-loop/switch region; other site 257314001898 HlyD family secretion protein; Region: HlyD_3; pfam13437 257314001899 Enterocin A Immunity; Region: EntA_Immun; pfam08951 257314001900 Enterocin A Immunity; Region: EntA_Immun; pfam08951 257314001901 potential frameshift: common BLAST hit: gi|268319120|ref|YP_003292776.1| cation-transporting ATPase, P-type 257314001902 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 257314001903 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 257314001904 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 257314001905 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 257314001906 phosphoglycolate phosphatase; Provisional; Region: PRK01158 257314001907 Soluble P-type ATPase [General function prediction only]; Region: COG4087 257314001908 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 257314001909 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 257314001910 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 257314001911 active site 257314001912 nucleophile elbow; other site 257314001913 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 257314001914 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 257314001915 substrate binding pocket [chemical binding]; other site 257314001916 membrane-bound complex binding site; other site 257314001917 hinge residues; other site 257314001918 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 257314001919 dimer interface [polypeptide binding]; other site 257314001920 conserved gate region; other site 257314001921 putative PBP binding loops; other site 257314001922 ABC-ATPase subunit interface; other site 257314001923 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 257314001924 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 257314001925 Walker A/P-loop; other site 257314001926 ATP binding site [chemical binding]; other site 257314001927 Q-loop/lid; other site 257314001928 ABC transporter signature motif; other site 257314001929 Walker B; other site 257314001930 D-loop; other site 257314001931 H-loop/switch region; other site 257314001932 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 257314001933 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257314001934 Coenzyme A binding pocket [chemical binding]; other site 257314001935 PBP superfamily domain; Region: PBP_like_2; cl17296 257314001936 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 257314001937 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 257314001938 dimer interface [polypeptide binding]; other site 257314001939 conserved gate region; other site 257314001940 putative PBP binding loops; other site 257314001941 ABC-ATPase subunit interface; other site 257314001942 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 257314001943 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 257314001944 dimer interface [polypeptide binding]; other site 257314001945 conserved gate region; other site 257314001946 putative PBP binding loops; other site 257314001947 ABC-ATPase subunit interface; other site 257314001948 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 257314001949 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 257314001950 Walker A/P-loop; other site 257314001951 ATP binding site [chemical binding]; other site 257314001952 Q-loop/lid; other site 257314001953 ABC transporter signature motif; other site 257314001954 Walker B; other site 257314001955 D-loop; other site 257314001956 H-loop/switch region; other site 257314001957 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14251 257314001958 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 257314001959 Walker A/P-loop; other site 257314001960 ATP binding site [chemical binding]; other site 257314001961 Q-loop/lid; other site 257314001962 ABC transporter signature motif; other site 257314001963 Walker B; other site 257314001964 D-loop; other site 257314001965 H-loop/switch region; other site 257314001966 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 257314001967 PhoU domain; Region: PhoU; pfam01895 257314001968 PhoU domain; Region: PhoU; pfam01895 257314001969 Predicted membrane protein [Function unknown]; Region: COG1288 257314001970 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 257314001971 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 257314001972 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 257314001973 dimerization interface [polypeptide binding]; other site 257314001974 DPS ferroxidase diiron center [ion binding]; other site 257314001975 ion pore; other site 257314001976 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 257314001977 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 257314001978 substrate binding site [chemical binding]; other site 257314001979 dimer interface [polypeptide binding]; other site 257314001980 ATP binding site [chemical binding]; other site 257314001981 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 257314001982 tetramer (dimer of dimers) interface [polypeptide binding]; other site 257314001983 active site 257314001984 dimer interface [polypeptide binding]; other site 257314001985 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 257314001986 active site 257314001987 tetramer interface [polypeptide binding]; other site 257314001988 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257314001989 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 257314001990 DNA-binding site [nucleotide binding]; DNA binding site 257314001991 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 257314001992 Enterocin A Immunity; Region: EntA_Immun; pfam08951 257314001993 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 257314001994 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 257314001995 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 257314001996 putative phosphoketolase; Provisional; Region: PRK05261 257314001997 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 257314001998 TPP-binding site; other site 257314001999 XFP C-terminal domain; Region: XFP_C; pfam09363 257314002000 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 257314002001 putative FMN binding site [chemical binding]; other site 257314002002 potential frameshift: common BLAST hit: gi|116629228|ref|YP_814400.1| hemolysin-like protein 257314002003 Domain of unknown function DUF21; Region: DUF21; pfam01595 257314002004 Domain of unknown function DUF21; Region: DUF21; pfam01595 257314002005 FOG: CBS domain [General function prediction only]; Region: COG0517 257314002006 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 257314002007 Transporter associated domain; Region: CorC_HlyC; smart01091 257314002008 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 257314002009 active site 257314002010 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 257314002011 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 257314002012 active site 257314002013 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 257314002014 DEAD-like helicases superfamily; Region: DEXDc; smart00487 257314002015 ATP binding site [chemical binding]; other site 257314002016 putative Mg++ binding site [ion binding]; other site 257314002017 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 257314002018 nucleotide binding region [chemical binding]; other site 257314002019 ATP-binding site [chemical binding]; other site 257314002020 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 257314002021 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 257314002022 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 257314002023 Transposase; Region: DDE_Tnp_ISL3; pfam01610 257314002024 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 257314002025 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 257314002026 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 257314002027 Walker A motif; other site 257314002028 ATP binding site [chemical binding]; other site 257314002029 Walker B motif; other site 257314002030 arginine finger; other site 257314002031 UvrB/uvrC motif; Region: UVR; pfam02151 257314002032 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 257314002033 Walker A motif; other site 257314002034 ATP binding site [chemical binding]; other site 257314002035 Walker B motif; other site 257314002036 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 257314002037 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 257314002038 dimerization domain swap beta strand [polypeptide binding]; other site 257314002039 regulatory protein interface [polypeptide binding]; other site 257314002040 active site 257314002041 regulatory phosphorylation site [posttranslational modification]; other site 257314002042 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 257314002043 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 257314002044 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 257314002045 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 257314002046 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 257314002047 ArsC family; Region: ArsC; pfam03960 257314002048 putative catalytic residues [active] 257314002049 thiol/disulfide switch; other site 257314002050 adaptor protein; Provisional; Region: PRK02315 257314002051 Competence protein CoiA-like family; Region: CoiA; cl11541 257314002052 Thioredoxin; Region: Thioredoxin_5; pfam13743 257314002053 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 257314002054 putative active site [active] 257314002055 putative metal binding residues [ion binding]; other site 257314002056 signature motif; other site 257314002057 putative triphosphate binding site [ion binding]; other site 257314002058 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 257314002059 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 257314002060 synthetase active site [active] 257314002061 NTP binding site [chemical binding]; other site 257314002062 metal binding site [ion binding]; metal-binding site 257314002063 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 257314002064 ATP-NAD kinase; Region: NAD_kinase; pfam01513 257314002065 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 257314002066 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 257314002067 active site 257314002068 myosin-cross-reactive antigen; Provisional; Region: PRK13977 257314002069 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 257314002070 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 257314002071 Walker A motif; other site 257314002072 ATP binding site [chemical binding]; other site 257314002073 Walker B motif; other site 257314002074 arginine finger; other site 257314002075 Uncharacterized conserved protein [Function unknown]; Region: COG3410 257314002076 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 257314002077 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 257314002078 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 257314002079 Domain of unknown function DUF20; Region: UPF0118; pfam01594 257314002080 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 257314002081 Protein of unknown function (DUF1149); Region: DUF1149; cl11551 257314002082 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 257314002083 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 257314002084 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 257314002085 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 257314002086 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 257314002087 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 257314002088 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 257314002089 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 257314002090 classical (c) SDRs; Region: SDR_c; cd05233 257314002091 NAD(P) binding site [chemical binding]; other site 257314002092 active site 257314002093 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 257314002094 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 257314002095 non-specific DNA binding site [nucleotide binding]; other site 257314002096 salt bridge; other site 257314002097 sequence-specific DNA binding site [nucleotide binding]; other site 257314002098 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 257314002099 recombinase A; Provisional; Region: recA; PRK09354 257314002100 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 257314002101 hexamer interface [polypeptide binding]; other site 257314002102 Walker A motif; other site 257314002103 ATP binding site [chemical binding]; other site 257314002104 Walker B motif; other site 257314002105 phosphodiesterase; Provisional; Region: PRK12704 257314002106 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 257314002107 Zn2+ binding site [ion binding]; other site 257314002108 Mg2+ binding site [ion binding]; other site 257314002109 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 257314002110 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 257314002111 Mg++ binding site [ion binding]; other site 257314002112 putative catalytic motif [active] 257314002113 substrate binding site [chemical binding]; other site 257314002114 Uncharacterized conserved protein [Function unknown]; Region: COG1739 257314002115 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 257314002116 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 257314002117 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 257314002118 ATP binding site [chemical binding]; other site 257314002119 putative Mg++ binding site [ion binding]; other site 257314002120 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 257314002121 nucleotide binding region [chemical binding]; other site 257314002122 ATP-binding site [chemical binding]; other site 257314002123 comF family protein; Region: comF; TIGR00201 257314002124 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 257314002125 active site 257314002126 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 257314002127 30S subunit binding site; other site 257314002128 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12906 257314002129 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 257314002130 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 257314002131 nucleotide binding region [chemical binding]; other site 257314002132 ATP-binding site [chemical binding]; other site 257314002133 peptide chain release factor 2; Provisional; Region: PRK05589 257314002134 This domain is found in peptide chain release factors; Region: PCRF; smart00937 257314002135 RF-1 domain; Region: RF-1; pfam00472 257314002136 HPr kinase/phosphorylase; Provisional; Region: PRK05428 257314002137 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 257314002138 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 257314002139 Hpr binding site; other site 257314002140 active site 257314002141 homohexamer subunit interaction site [polypeptide binding]; other site 257314002142 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 257314002143 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 257314002144 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 257314002145 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 257314002146 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 257314002147 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 257314002148 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 257314002149 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 257314002150 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 257314002151 NAD binding site [chemical binding]; other site 257314002152 homodimer interface [polypeptide binding]; other site 257314002153 active site 257314002154 substrate binding site [chemical binding]; other site 257314002155 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 257314002156 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 257314002157 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 257314002158 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 257314002159 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 257314002160 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 257314002161 DNA binding site [nucleotide binding] 257314002162 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 257314002163 putative dimerization interface [polypeptide binding]; other site 257314002164 putative ligand binding site [chemical binding]; other site 257314002165 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 257314002166 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 257314002167 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 257314002168 HPr interaction site; other site 257314002169 glycerol kinase (GK) interaction site [polypeptide binding]; other site 257314002170 active site 257314002171 phosphorylation site [posttranslational modification] 257314002172 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 257314002173 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 257314002174 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 257314002175 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 257314002176 galactokinase; Provisional; Region: PRK05322 257314002177 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 257314002178 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 257314002179 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 257314002180 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 257314002181 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 257314002182 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 257314002183 active site 257314002184 catalytic residues [active] 257314002185 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 257314002186 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 257314002187 active site 257314002188 substrate binding site [chemical binding]; other site 257314002189 metal binding site [ion binding]; metal-binding site 257314002190 excinuclease ABC subunit B; Provisional; Region: PRK05298 257314002191 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 257314002192 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 257314002193 ATP-binding site [chemical binding]; other site 257314002194 ATP binding site [chemical binding]; other site 257314002195 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 257314002196 nucleotide binding region [chemical binding]; other site 257314002197 ATP-binding site [chemical binding]; other site 257314002198 Ultra-violet resistance protein B; Region: UvrB; pfam12344 257314002199 UvrB/uvrC motif; Region: UVR; pfam02151 257314002200 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 257314002201 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 257314002202 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 257314002203 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 257314002204 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 257314002205 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 257314002206 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 257314002207 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 257314002208 phosphate binding site [ion binding]; other site 257314002209 putative substrate binding pocket [chemical binding]; other site 257314002210 dimer interface [polypeptide binding]; other site 257314002211 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 257314002212 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 257314002213 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 257314002214 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 257314002215 oligomer interface [polypeptide binding]; other site 257314002216 active site residues [active] 257314002217 Amino acid permease; Region: AA_permease_2; pfam13520 257314002218 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 257314002219 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 257314002220 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 257314002221 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 257314002222 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 257314002223 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 257314002224 Phosphoglycerate kinase; Region: PGK; pfam00162 257314002225 substrate binding site [chemical binding]; other site 257314002226 hinge regions; other site 257314002227 ADP binding site [chemical binding]; other site 257314002228 catalytic site [active] 257314002229 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 257314002230 triosephosphate isomerase; Provisional; Region: PRK14567 257314002231 substrate binding site [chemical binding]; other site 257314002232 dimer interface [polypeptide binding]; other site 257314002233 catalytic triad [active] 257314002234 enolase; Provisional; Region: eno; PRK00077 257314002235 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 257314002236 dimer interface [polypeptide binding]; other site 257314002237 metal binding site [ion binding]; metal-binding site 257314002238 substrate binding pocket [chemical binding]; other site 257314002239 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 257314002240 ribonuclease R; Region: RNase_R; TIGR02063 257314002241 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 257314002242 RNB domain; Region: RNB; pfam00773 257314002243 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 257314002244 RNA binding site [nucleotide binding]; other site 257314002245 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 257314002246 SmpB-tmRNA interface; other site 257314002247 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257314002248 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 257314002249 Coenzyme A binding pocket [chemical binding]; other site 257314002250 Tubby C 2; Region: Tub_2; cl02043 257314002251 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 257314002252 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 257314002253 active site 257314002254 motif I; other site 257314002255 motif II; other site 257314002256 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 257314002257 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 257314002258 ligand binding site [chemical binding]; other site 257314002259 active site 257314002260 UGI interface [polypeptide binding]; other site 257314002261 catalytic site [active] 257314002262 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 257314002263 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 257314002264 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 257314002265 active site 257314002266 catalytic site [active] 257314002267 substrate binding site [chemical binding]; other site 257314002268 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 257314002269 FAD binding domain; Region: FAD_binding_4; pfam01565 257314002270 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 257314002271 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 257314002272 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 257314002273 Walker A/P-loop; other site 257314002274 ATP binding site [chemical binding]; other site 257314002275 Q-loop/lid; other site 257314002276 ABC transporter signature motif; other site 257314002277 Walker B; other site 257314002278 D-loop; other site 257314002279 H-loop/switch region; other site 257314002280 TOBE domain; Region: TOBE_2; pfam08402 257314002281 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 257314002282 dimer interface [polypeptide binding]; other site 257314002283 conserved gate region; other site 257314002284 putative PBP binding loops; other site 257314002285 ABC-ATPase subunit interface; other site 257314002286 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 257314002287 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 257314002288 dimer interface [polypeptide binding]; other site 257314002289 ABC-ATPase subunit interface; other site 257314002290 putative PBP binding loops; other site 257314002291 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 257314002292 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 257314002293 Uncharacterized conserved protein [Function unknown]; Region: COG1624 257314002294 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 257314002295 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 257314002296 YbbR-like protein; Region: YbbR; pfam07949 257314002297 YbbR-like protein; Region: YbbR; pfam07949 257314002298 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 257314002299 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 257314002300 active site 257314002301 substrate binding site [chemical binding]; other site 257314002302 metal binding site [ion binding]; metal-binding site 257314002303 sugar phosphate phosphatase; Provisional; Region: PRK10513 257314002304 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 257314002305 active site 257314002306 motif I; other site 257314002307 motif II; other site 257314002308 CrcB-like protein; Region: CRCB; pfam02537 257314002309 camphor resistance protein CrcB; Provisional; Region: PRK14220 257314002310 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 257314002311 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 257314002312 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 257314002313 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 257314002314 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 257314002315 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 257314002316 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 257314002317 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 257314002318 intersubunit interface [polypeptide binding]; other site 257314002319 Flavoprotein; Region: Flavoprotein; pfam02441 257314002320 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 257314002321 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 257314002322 Predicted integral membrane protein [Function unknown]; Region: COG5652 257314002323 hypothetical protein; Validated; Region: PRK00110 257314002324 Type II/IV secretion system protein; Region: T2SE; pfam00437 257314002325 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 257314002326 Walker A motif; other site 257314002327 ATP binding site [chemical binding]; other site 257314002328 Walker B motif; other site 257314002329 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 257314002330 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 257314002331 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 257314002332 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 257314002333 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 257314002334 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 257314002335 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 257314002336 S-adenosylmethionine binding site [chemical binding]; other site 257314002337 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 257314002338 propionate/acetate kinase; Provisional; Region: PRK12379 257314002339 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 257314002340 active site 257314002341 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 257314002342 Protein of unknown function (DUF3737); Region: DUF3737; pfam12541 257314002343 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 257314002344 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 257314002345 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257314002346 homodimer interface [polypeptide binding]; other site 257314002347 catalytic residue [active] 257314002348 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 257314002349 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 257314002350 SdpI/YhfL protein family; Region: SdpI; pfam13630 257314002351 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 257314002352 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 257314002353 active site 257314002354 phosphorylation site [posttranslational modification] 257314002355 intermolecular recognition site; other site 257314002356 dimerization interface [polypeptide binding]; other site 257314002357 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 257314002358 DNA binding site [nucleotide binding] 257314002359 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 257314002360 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 257314002361 dimerization interface [polypeptide binding]; other site 257314002362 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 257314002363 dimer interface [polypeptide binding]; other site 257314002364 phosphorylation site [posttranslational modification] 257314002365 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 257314002366 ATP binding site [chemical binding]; other site 257314002367 Mg2+ binding site [ion binding]; other site 257314002368 G-X-G motif; other site 257314002369 potential frameshift: common BLAST hit: gi|116629891|ref|YP_815063.1| phosphoglycerol transferase/alkaline phosphatase superfamily 257314002370 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 257314002371 potential frameshift: common BLAST hit: gi|116629891|ref|YP_815063.1| phosphoglycerol transferase/alkaline phosphatase superfamily 257314002372 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 257314002373 Sulfatase; Region: Sulfatase; cl17466 257314002374 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 257314002375 VanZ like family; Region: VanZ; cl01971 257314002376 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 257314002377 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 257314002378 active site 257314002379 dimer interface [polypeptide binding]; other site 257314002380 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 257314002381 dimer interface [polypeptide binding]; other site 257314002382 active site 257314002383 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 257314002384 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257314002385 putative substrate translocation pore; other site 257314002386 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 257314002387 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 257314002388 Beta-lactamase; Region: Beta-lactamase; pfam00144 257314002389 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 257314002390 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 257314002391 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 257314002392 thymidine kinase; Provisional; Region: PRK04296 257314002393 peptide chain release factor 1; Validated; Region: prfA; PRK00591 257314002394 This domain is found in peptide chain release factors; Region: PCRF; smart00937 257314002395 RF-1 domain; Region: RF-1; pfam00472 257314002396 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 257314002397 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 257314002398 S-adenosylmethionine binding site [chemical binding]; other site 257314002399 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 257314002400 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 257314002401 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 257314002402 active site 257314002403 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 257314002404 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 257314002405 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 257314002406 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 257314002407 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 257314002408 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 257314002409 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 257314002410 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 257314002411 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 257314002412 beta subunit interaction interface [polypeptide binding]; other site 257314002413 Walker A motif; other site 257314002414 ATP binding site [chemical binding]; other site 257314002415 Walker B motif; other site 257314002416 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 257314002417 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 257314002418 core domain interface [polypeptide binding]; other site 257314002419 delta subunit interface [polypeptide binding]; other site 257314002420 epsilon subunit interface [polypeptide binding]; other site 257314002421 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 257314002422 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 257314002423 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 257314002424 alpha subunit interaction interface [polypeptide binding]; other site 257314002425 Walker A motif; other site 257314002426 ATP binding site [chemical binding]; other site 257314002427 Walker B motif; other site 257314002428 inhibitor binding site; inhibition site 257314002429 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 257314002430 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 257314002431 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 257314002432 gamma subunit interface [polypeptide binding]; other site 257314002433 epsilon subunit interface [polypeptide binding]; other site 257314002434 LBP interface [polypeptide binding]; other site 257314002435 Protein of unknown function (DUF1146); Region: DUF1146; pfam06612 257314002436 rod shape-determining protein MreB; Provisional; Region: PRK13930 257314002437 MreB and similar proteins; Region: MreB_like; cd10225 257314002438 nucleotide binding site [chemical binding]; other site 257314002439 Mg binding site [ion binding]; other site 257314002440 putative protofilament interaction site [polypeptide binding]; other site 257314002441 RodZ interaction site [polypeptide binding]; other site 257314002442 hypothetical protein; Provisional; Region: PRK14379 257314002443 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 257314002444 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 257314002445 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 257314002446 Ligand Binding Site [chemical binding]; other site 257314002447 recombination factor protein RarA; Reviewed; Region: PRK13342 257314002448 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 257314002449 Walker A motif; other site 257314002450 ATP binding site [chemical binding]; other site 257314002451 Walker B motif; other site 257314002452 arginine finger; other site 257314002453 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 257314002454 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 257314002455 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 257314002456 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 257314002457 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 257314002458 RNA binding surface [nucleotide binding]; other site 257314002459 Septation ring formation regulator, EzrA; Region: EzrA; pfam06160 257314002460 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 257314002461 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 257314002462 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 257314002463 catalytic residue [active] 257314002464 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 257314002465 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 257314002466 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 257314002467 Ligand Binding Site [chemical binding]; other site 257314002468 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 257314002469 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 257314002470 RNA binding surface [nucleotide binding]; other site 257314002471 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 257314002472 active site 257314002473 uracil binding [chemical binding]; other site 257314002474 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 257314002475 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 257314002476 active site 257314002477 catalytic site [active] 257314002478 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 257314002479 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 257314002480 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 257314002481 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 257314002482 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 257314002483 motif II; other site 257314002484 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 257314002485 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 257314002486 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 257314002487 active site 257314002488 HIGH motif; other site 257314002489 nucleotide binding site [chemical binding]; other site 257314002490 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 257314002491 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 257314002492 active site 257314002493 KMSKS motif; other site 257314002494 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 257314002495 tRNA binding surface [nucleotide binding]; other site 257314002496 anticodon binding site; other site 257314002497 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 257314002498 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 257314002499 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 257314002500 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 257314002501 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 257314002502 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 257314002503 motif II; other site 257314002504 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 257314002505 MPN+ (JAMM) motif; other site 257314002506 Zinc-binding site [ion binding]; other site 257314002507 rod shape-determining protein MreB; Provisional; Region: PRK13927 257314002508 MreB and similar proteins; Region: MreB_like; cd10225 257314002509 nucleotide binding site [chemical binding]; other site 257314002510 Mg binding site [ion binding]; other site 257314002511 putative protofilament interaction site [polypeptide binding]; other site 257314002512 RodZ interaction site [polypeptide binding]; other site 257314002513 rod shape-determining protein MreC; Provisional; Region: PRK13922 257314002514 rod shape-determining protein MreC; Region: MreC; pfam04085 257314002515 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 257314002516 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 257314002517 cell division protein MraZ; Reviewed; Region: PRK00326 257314002518 MraZ protein; Region: MraZ; pfam02381 257314002519 MraZ protein; Region: MraZ; pfam02381 257314002520 MraW methylase family; Region: Methyltransf_5; pfam01795 257314002521 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 257314002522 Cell division protein FtsL; Region: FtsL; cl11433 257314002523 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 257314002524 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 257314002525 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 257314002526 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 257314002527 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 257314002528 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 257314002529 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 257314002530 Mg++ binding site [ion binding]; other site 257314002531 putative catalytic motif [active] 257314002532 putative substrate binding site [chemical binding]; other site 257314002533 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 257314002534 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 257314002535 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 257314002536 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 257314002537 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 257314002538 active site 257314002539 homodimer interface [polypeptide binding]; other site 257314002540 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 257314002541 Cell division protein FtsQ; Region: FtsQ; pfam03799 257314002542 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 257314002543 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 257314002544 nucleotide binding site [chemical binding]; other site 257314002545 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 257314002546 Cell division protein FtsA; Region: FtsA; pfam14450 257314002547 cell division protein FtsZ; Validated; Region: PRK09330 257314002548 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 257314002549 nucleotide binding site [chemical binding]; other site 257314002550 SulA interaction site; other site 257314002551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 257314002552 YGGT family; Region: YGGT; pfam02325 257314002553 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 257314002554 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 257314002555 RNA binding surface [nucleotide binding]; other site 257314002556 DivIVA domain; Region: DivI1A_domain; TIGR03544 257314002557 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 257314002558 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 257314002559 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 257314002560 active site 257314002561 HIGH motif; other site 257314002562 nucleotide binding site [chemical binding]; other site 257314002563 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 257314002564 active site 257314002565 KMSKS motif; other site 257314002566 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 257314002567 tRNA binding surface [nucleotide binding]; other site 257314002568 anticodon binding site; other site 257314002569 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 257314002570 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 257314002571 DNA-binding site [nucleotide binding]; DNA binding site 257314002572 RNA-binding motif; other site 257314002573 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 257314002574 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 257314002575 dimer interface [polypeptide binding]; other site 257314002576 ADP-ribose binding site [chemical binding]; other site 257314002577 active site 257314002578 nudix motif; other site 257314002579 metal binding site [ion binding]; metal-binding site 257314002580 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 257314002581 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 257314002582 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 257314002583 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 257314002584 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 257314002585 catalytic residue [active] 257314002586 Putative amino acid metabolism; Region: DUF1831; pfam08866 257314002587 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 257314002588 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 257314002589 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 257314002590 catalytic core [active] 257314002591 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 257314002592 binding surface 257314002593 TPR motif; other site 257314002594 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 257314002595 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 257314002596 binding surface 257314002597 TPR motif; other site 257314002598 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 257314002599 AAA domain; Region: AAA_30; pfam13604 257314002600 Family description; Region: UvrD_C_2; pfam13538 257314002601 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 257314002602 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 257314002603 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 257314002604 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 257314002605 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 257314002606 Protein of unknown function (DUF1447); Region: DUF1447; pfam07288 257314002607 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 257314002608 active site 257314002609 catalytic residues [active] 257314002610 metal binding site [ion binding]; metal-binding site 257314002611 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 257314002612 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 257314002613 putative GEF interaction site [polypeptide binding]; other site 257314002614 G1 box; other site 257314002615 GTP/Mg2+ binding site [chemical binding]; other site 257314002616 Switch I region; other site 257314002617 G2 box; other site 257314002618 G3 box; other site 257314002619 Switch II region; other site 257314002620 G4 box; other site 257314002621 G5 box; other site 257314002622 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 257314002623 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 257314002624 cell division protein FtsW; Region: ftsW; TIGR02614 257314002625 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; pfam09902 257314002626 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 257314002627 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 257314002628 S-adenosylmethionine binding site [chemical binding]; other site 257314002629 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 257314002630 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 257314002631 active site 257314002632 (T/H)XGH motif; other site 257314002633 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 257314002634 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 257314002635 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 257314002636 SLBB domain; Region: SLBB; pfam10531 257314002637 comEA protein; Region: comE; TIGR01259 257314002638 Helix-hairpin-helix motif; Region: HHH; pfam00633 257314002639 potential frameshift: common BLAST hit: gi|268319675|ref|YP_003293331.1| competence protein ComEC 257314002640 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 257314002641 Competence protein; Region: Competence; pfam03772 257314002642 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 257314002643 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 257314002644 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 257314002645 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 257314002646 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 257314002647 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 257314002648 16S/18S rRNA binding site [nucleotide binding]; other site 257314002649 S13e-L30e interaction site [polypeptide binding]; other site 257314002650 25S rRNA binding site [nucleotide binding]; other site 257314002651 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 257314002652 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 257314002653 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 257314002654 elongation factor Tu; Reviewed; Region: PRK00049 257314002655 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 257314002656 G1 box; other site 257314002657 GEF interaction site [polypeptide binding]; other site 257314002658 GTP/Mg2+ binding site [chemical binding]; other site 257314002659 Switch I region; other site 257314002660 G2 box; other site 257314002661 G3 box; other site 257314002662 Switch II region; other site 257314002663 G4 box; other site 257314002664 G5 box; other site 257314002665 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 257314002666 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 257314002667 Antibiotic Binding Site [chemical binding]; other site 257314002668 trigger factor; Provisional; Region: tig; PRK01490 257314002669 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 257314002670 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 257314002671 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 257314002672 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 257314002673 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 257314002674 Walker A motif; other site 257314002675 ATP binding site [chemical binding]; other site 257314002676 Walker B motif; other site 257314002677 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 257314002678 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 257314002679 G1 box; other site 257314002680 GTP/Mg2+ binding site [chemical binding]; other site 257314002681 Switch I region; other site 257314002682 G2 box; other site 257314002683 G3 box; other site 257314002684 Switch II region; other site 257314002685 G4 box; other site 257314002686 G5 box; other site 257314002687 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 257314002688 Low molecular weight phosphatase family; Region: LMWPc; cd00115 257314002689 active site 257314002690 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 257314002691 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 257314002692 catalytic residues [active] 257314002693 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 257314002694 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 257314002695 catalytic residues [active] 257314002696 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 257314002697 Chain length determinant protein; Region: Wzz; cl15801 257314002698 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 257314002699 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 257314002700 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 257314002701 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 257314002702 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 257314002703 Bacterial sugar transferase; Region: Bac_transf; pfam02397 257314002704 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 257314002705 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257314002706 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 257314002707 putative ADP-binding pocket [chemical binding]; other site 257314002708 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257314002709 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 257314002710 putative ADP-binding pocket [chemical binding]; other site 257314002711 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257314002712 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 257314002713 putative ADP-binding pocket [chemical binding]; other site 257314002714 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_b; cd04185 257314002715 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 257314002716 Probable Catalytic site; other site 257314002717 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 257314002718 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 257314002719 UDP-galactopyranose mutase; Region: GLF; pfam03275 257314002720 Core-2/I-Branching enzyme; Region: Branch; pfam02485 257314002721 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 257314002722 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 257314002723 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 257314002724 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 257314002725 Transposase; Region: DDE_Tnp_ISL3; pfam01610 257314002726 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 257314002727 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 257314002728 Domain of unknown function (DUF955); Region: DUF955; pfam06114 257314002729 Domain of unknown function (DUF4411); Region: DUF4411; pfam14367 257314002730 AAA ATPase domain; Region: AAA_16; pfam13191 257314002731 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 257314002732 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 257314002733 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 257314002734 DNA binding residues [nucleotide binding] 257314002735 dimer interface [polypeptide binding]; other site 257314002736 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 257314002737 S-adenosylmethionine binding site [chemical binding]; other site 257314002738 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 257314002739 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 257314002740 NAD binding site [chemical binding]; other site 257314002741 substrate binding site [chemical binding]; other site 257314002742 homodimer interface [polypeptide binding]; other site 257314002743 active site 257314002744 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 257314002745 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 257314002746 substrate binding site; other site 257314002747 tetramer interface; other site 257314002748 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 257314002749 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 257314002750 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 257314002751 NADP binding site [chemical binding]; other site 257314002752 active site 257314002753 putative substrate binding site [chemical binding]; other site 257314002754 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 257314002755 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 257314002756 non-specific DNA binding site [nucleotide binding]; other site 257314002757 salt bridge; other site 257314002758 sequence-specific DNA binding site [nucleotide binding]; other site 257314002759 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 257314002760 AAA domain; Region: AAA_21; pfam13304 257314002761 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314002762 Walker B; other site 257314002763 D-loop; other site 257314002764 H-loop/switch region; other site 257314002765 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 257314002766 putative active site [active] 257314002767 putative metal-binding site [ion binding]; other site 257314002768 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 257314002769 Part of AAA domain; Region: AAA_19; pfam13245 257314002770 Family description; Region: UvrD_C_2; pfam13538 257314002771 Peptidase family M48; Region: Peptidase_M48; cl12018 257314002772 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 257314002773 putative active site [active] 257314002774 nucleotide binding site [chemical binding]; other site 257314002775 nudix motif; other site 257314002776 putative metal binding site [ion binding]; other site 257314002777 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 257314002778 Rib/alpha-like repeat; Region: Rib; pfam08428 257314002779 Amino acid permease; Region: AA_permease_2; pfam13520 257314002780 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257314002781 NADH(P)-binding; Region: NAD_binding_10; pfam13460 257314002782 NAD(P) binding site [chemical binding]; other site 257314002783 active site 257314002784 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 257314002785 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 257314002786 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 257314002787 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 257314002788 active site 257314002789 dimerization interface [polypeptide binding]; other site 257314002790 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 257314002791 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 257314002792 GIY-YIG motif/motif A; other site 257314002793 active site 257314002794 catalytic site [active] 257314002795 putative DNA binding site [nucleotide binding]; other site 257314002796 metal binding site [ion binding]; metal-binding site 257314002797 UvrB/uvrC motif; Region: UVR; pfam02151 257314002798 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 257314002799 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 257314002800 DNA binding site [nucleotide binding] 257314002801 GTPase CgtA; Reviewed; Region: obgE; PRK12297 257314002802 GTP1/OBG; Region: GTP1_OBG; pfam01018 257314002803 Obg GTPase; Region: Obg; cd01898 257314002804 G1 box; other site 257314002805 GTP/Mg2+ binding site [chemical binding]; other site 257314002806 Switch I region; other site 257314002807 G2 box; other site 257314002808 G3 box; other site 257314002809 Switch II region; other site 257314002810 G4 box; other site 257314002811 G5 box; other site 257314002812 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 257314002813 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 257314002814 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 257314002815 catalytic triad [active] 257314002816 catalytic triad [active] 257314002817 oxyanion hole [active] 257314002818 ribonuclease Z; Region: RNase_Z; TIGR02651 257314002819 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 257314002820 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257314002821 NAD(P) binding site [chemical binding]; other site 257314002822 active site 257314002823 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 257314002824 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 257314002825 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 257314002826 active site 257314002827 metal binding site [ion binding]; metal-binding site 257314002828 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 257314002829 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 257314002830 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 257314002831 active site 257314002832 PHP Thumb interface [polypeptide binding]; other site 257314002833 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 257314002834 generic binding surface II; other site 257314002835 generic binding surface I; other site 257314002836 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 257314002837 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 257314002838 active site 257314002839 ADP/pyrophosphate binding site [chemical binding]; other site 257314002840 dimerization interface [polypeptide binding]; other site 257314002841 allosteric effector site; other site 257314002842 fructose-1,6-bisphosphate binding site; other site 257314002843 pyruvate kinase; Provisional; Region: PRK06354 257314002844 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 257314002845 domain interfaces; other site 257314002846 active site 257314002847 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 257314002848 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 257314002849 S1 domain; Region: S1_2; pfam13509 257314002850 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 257314002851 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 257314002852 active site 257314002853 Int/Topo IB signature motif; other site 257314002854 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 257314002855 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 257314002856 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 257314002857 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 257314002858 RNA binding surface [nucleotide binding]; other site 257314002859 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 257314002860 active site 257314002861 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 257314002862 Predicted membrane protein [Function unknown]; Region: COG3601 257314002863 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 257314002864 cytidylate kinase; Provisional; Region: cmk; PRK00023 257314002865 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 257314002866 CMP-binding site; other site 257314002867 The sites determining sugar specificity; other site 257314002868 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 257314002869 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 257314002870 RNA binding site [nucleotide binding]; other site 257314002871 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 257314002872 RNA binding site [nucleotide binding]; other site 257314002873 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_hs4; cd05692 257314002874 RNA binding site [nucleotide binding]; other site 257314002875 GTP-binding protein Der; Reviewed; Region: PRK00093 257314002876 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 257314002877 G1 box; other site 257314002878 GTP/Mg2+ binding site [chemical binding]; other site 257314002879 Switch I region; other site 257314002880 G2 box; other site 257314002881 Switch II region; other site 257314002882 G3 box; other site 257314002883 G4 box; other site 257314002884 G5 box; other site 257314002885 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 257314002886 G1 box; other site 257314002887 GTP/Mg2+ binding site [chemical binding]; other site 257314002888 Switch I region; other site 257314002889 G2 box; other site 257314002890 G3 box; other site 257314002891 Switch II region; other site 257314002892 G4 box; other site 257314002893 G5 box; other site 257314002894 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 257314002895 IHF dimer interface [polypeptide binding]; other site 257314002896 IHF - DNA interface [nucleotide binding]; other site 257314002897 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 257314002898 binding surface 257314002899 TPR motif; other site 257314002900 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 257314002901 binding surface 257314002902 TPR motif; other site 257314002903 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 257314002904 binding surface 257314002905 TPR motif; other site 257314002906 GIY-YIG domain of uncharacterized bacterial protein structurally related to COG3410; Region: GIY-YIG_COG3410; cd10439 257314002907 GIY-YIG motif/motif A; other site 257314002908 putative active site [active] 257314002909 putative metal binding site [ion binding]; other site 257314002910 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 257314002911 Uncharacterized conserved protein [Function unknown]; Region: COG3410 257314002912 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 257314002913 Ion transport protein; Region: Ion_trans; pfam00520 257314002914 Ion channel; Region: Ion_trans_2; pfam07885 257314002915 Nnf1; Region: Nnf1; pfam03980 257314002916 Uncharacterized conserved protein [Function unknown]; Region: COG1284 257314002917 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 257314002918 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 257314002919 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 257314002920 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 257314002921 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 257314002922 active site 257314002923 NTP binding site [chemical binding]; other site 257314002924 metal binding triad [ion binding]; metal-binding site 257314002925 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 257314002926 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 257314002927 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 257314002928 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 257314002929 EDD domain protein, DegV family; Region: DegV; TIGR00762 257314002930 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 257314002931 hypothetical protein; Provisional; Region: PRK13672 257314002932 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 257314002933 C-terminal peptidase (prc); Region: prc; TIGR00225 257314002934 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 257314002935 protein binding site [polypeptide binding]; other site 257314002936 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 257314002937 Catalytic dyad [active] 257314002938 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 257314002939 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 257314002940 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 257314002941 GTP/Mg2+ binding site [chemical binding]; other site 257314002942 G4 box; other site 257314002943 G5 box; other site 257314002944 G1 box; other site 257314002945 Switch I region; other site 257314002946 G2 box; other site 257314002947 G3 box; other site 257314002948 Switch II region; other site 257314002949 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 257314002950 RNA/DNA hybrid binding site [nucleotide binding]; other site 257314002951 active site 257314002952 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 257314002953 DNA protecting protein DprA; Region: dprA; TIGR00732 257314002954 DNA topoisomerase I; Validated; Region: PRK05582 257314002955 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 257314002956 active site 257314002957 interdomain interaction site; other site 257314002958 putative metal-binding site [ion binding]; other site 257314002959 nucleotide binding site [chemical binding]; other site 257314002960 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 257314002961 domain I; other site 257314002962 DNA binding groove [nucleotide binding] 257314002963 phosphate binding site [ion binding]; other site 257314002964 domain II; other site 257314002965 domain III; other site 257314002966 nucleotide binding site [chemical binding]; other site 257314002967 catalytic site [active] 257314002968 domain IV; other site 257314002969 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 257314002970 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 257314002971 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 257314002972 Glucose inhibited division protein A; Region: GIDA; pfam01134 257314002973 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 257314002974 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 257314002975 active site 257314002976 Int/Topo IB signature motif; other site 257314002977 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 257314002978 active site 257314002979 HslU subunit interaction site [polypeptide binding]; other site 257314002980 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 257314002981 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 257314002982 Walker A motif; other site 257314002983 ATP binding site [chemical binding]; other site 257314002984 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 257314002985 Walker B motif; other site 257314002986 arginine finger; other site 257314002987 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 257314002988 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 257314002989 active site 257314002990 catalytic residues [active] 257314002991 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 257314002992 dimerization interface [polypeptide binding]; other site 257314002993 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 257314002994 Predicted membrane protein [Function unknown]; Region: COG2855 257314002995 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257314002996 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 257314002997 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 257314002998 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 257314002999 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 257314003000 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 257314003001 catalytic Zn binding site [ion binding]; other site 257314003002 NAD(P) binding site [chemical binding]; other site 257314003003 structural Zn binding site [ion binding]; other site 257314003004 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 257314003005 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 257314003006 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257314003007 ABC transporter; Region: ABC_tran_2; pfam12848 257314003008 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257314003009 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 257314003010 acetolactate synthase; Reviewed; Region: PRK08617 257314003011 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 257314003012 PYR/PP interface [polypeptide binding]; other site 257314003013 dimer interface [polypeptide binding]; other site 257314003014 TPP binding site [chemical binding]; other site 257314003015 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 257314003016 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 257314003017 TPP-binding site [chemical binding]; other site 257314003018 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 257314003019 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 257314003020 LytTr DNA-binding domain; Region: LytTR; smart00850 257314003021 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 257314003022 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 257314003023 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 257314003024 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 257314003025 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 257314003026 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 257314003027 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 257314003028 motif II; other site 257314003029 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 257314003030 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_14; cd04672 257314003031 nudix motif; other site 257314003032 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 257314003033 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 257314003034 active site 257314003035 phosphorylation site [posttranslational modification] 257314003036 intermolecular recognition site; other site 257314003037 dimerization interface [polypeptide binding]; other site 257314003038 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 257314003039 DNA binding site [nucleotide binding] 257314003040 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 257314003041 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 257314003042 dimer interface [polypeptide binding]; other site 257314003043 phosphorylation site [posttranslational modification] 257314003044 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 257314003045 ATP binding site [chemical binding]; other site 257314003046 Mg2+ binding site [ion binding]; other site 257314003047 G-X-G motif; other site 257314003048 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 257314003049 Predicted membrane protein [Function unknown]; Region: COG3212 257314003050 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 257314003051 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 257314003052 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 257314003053 NAD(P) binding site [chemical binding]; other site 257314003054 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 257314003055 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 257314003056 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 257314003057 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 257314003058 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 257314003059 Walker A/P-loop; other site 257314003060 ATP binding site [chemical binding]; other site 257314003061 Q-loop/lid; other site 257314003062 ABC transporter signature motif; other site 257314003063 Walker B; other site 257314003064 D-loop; other site 257314003065 H-loop/switch region; other site 257314003066 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 257314003067 FeS assembly protein SufD; Region: sufD; TIGR01981 257314003068 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 257314003069 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 257314003070 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 257314003071 catalytic residue [active] 257314003072 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 257314003073 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 257314003074 trimerization site [polypeptide binding]; other site 257314003075 active site 257314003076 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 257314003077 FeS assembly protein SufB; Region: sufB; TIGR01980 257314003078 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 257314003079 manganese transport protein MntH; Reviewed; Region: PRK00701 257314003080 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 257314003081 Methyltransferase domain; Region: Methyltransf_23; pfam13489 257314003082 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 257314003083 S-adenosylmethionine binding site [chemical binding]; other site 257314003084 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 257314003085 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 257314003086 active site 257314003087 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 257314003088 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314003089 Walker A/P-loop; other site 257314003090 ATP binding site [chemical binding]; other site 257314003091 Q-loop/lid; other site 257314003092 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 257314003093 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314003094 ABC transporter signature motif; other site 257314003095 Walker B; other site 257314003096 D-loop; other site 257314003097 H-loop/switch region; other site 257314003098 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314003099 AAA domain; Region: AAA_21; pfam13304 257314003100 Walker A/P-loop; other site 257314003101 ATP binding site [chemical binding]; other site 257314003102 Q-loop/lid; other site 257314003103 ABC transporter signature motif; other site 257314003104 Walker B; other site 257314003105 D-loop; other site 257314003106 H-loop/switch region; other site 257314003107 Uncharacterized conserved protein [Function unknown]; Region: COG1359 257314003108 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 257314003109 dimer interface [polypeptide binding]; other site 257314003110 catalytic triad [active] 257314003111 peroxidatic and resolving cysteines [active] 257314003112 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 257314003113 magnesium-transporting ATPase; Provisional; Region: PRK15122 257314003114 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 257314003115 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 257314003116 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 257314003117 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 257314003118 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 257314003119 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 257314003120 MarR family; Region: MarR_2; pfam12802 257314003121 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 257314003122 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257314003123 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314003124 Walker A/P-loop; other site 257314003125 ATP binding site [chemical binding]; other site 257314003126 Q-loop/lid; other site 257314003127 ABC transporter signature motif; other site 257314003128 Walker B; other site 257314003129 D-loop; other site 257314003130 H-loop/switch region; other site 257314003131 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 257314003132 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 257314003133 active site 257314003134 catalytic tetrad [active] 257314003135 recombination factor protein RarA; Reviewed; Region: PRK13342 257314003136 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 257314003137 Walker A motif; other site 257314003138 ATP binding site [chemical binding]; other site 257314003139 Walker B motif; other site 257314003140 arginine finger; other site 257314003141 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 257314003142 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 257314003143 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 257314003144 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 257314003145 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 257314003146 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 257314003147 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 257314003148 Walker A/P-loop; other site 257314003149 ATP binding site [chemical binding]; other site 257314003150 Q-loop/lid; other site 257314003151 ABC transporter signature motif; other site 257314003152 Walker B; other site 257314003153 D-loop; other site 257314003154 H-loop/switch region; other site 257314003155 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 257314003156 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 257314003157 active site 257314003158 catalytic tetrad [active] 257314003159 maltose O-acetyltransferase; Provisional; Region: PRK10092 257314003160 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 257314003161 active site 257314003162 substrate binding site [chemical binding]; other site 257314003163 trimer interface [polypeptide binding]; other site 257314003164 CoA binding site [chemical binding]; other site 257314003165 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 257314003166 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 257314003167 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 257314003168 Mg2+ binding site [ion binding]; other site 257314003169 G-X-G motif; other site 257314003170 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 257314003171 anchoring element; other site 257314003172 dimer interface [polypeptide binding]; other site 257314003173 ATP binding site [chemical binding]; other site 257314003174 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 257314003175 active site 257314003176 putative metal-binding site [ion binding]; other site 257314003177 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 257314003178 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 257314003179 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 257314003180 CAP-like domain; other site 257314003181 active site 257314003182 primary dimer interface [polypeptide binding]; other site 257314003183 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 257314003184 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 257314003185 putative DNA binding site [nucleotide binding]; other site 257314003186 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257314003187 putative Zn2+ binding site [ion binding]; other site 257314003188 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 257314003189 dimerization interface [polypeptide binding]; other site 257314003190 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 257314003191 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 257314003192 DHHA2 domain; Region: DHHA2; pfam02833 257314003193 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 257314003194 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 257314003195 ATP binding site [chemical binding]; other site 257314003196 putative Mg++ binding site [ion binding]; other site 257314003197 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 257314003198 nucleotide binding region [chemical binding]; other site 257314003199 ATP-binding site [chemical binding]; other site 257314003200 RQC domain; Region: RQC; pfam09382 257314003201 HRDC domain; Region: HRDC; pfam00570 257314003202 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 257314003203 active site 257314003204 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 257314003205 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 257314003206 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 257314003207 active site 257314003208 DNA binding site [nucleotide binding] 257314003209 Int/Topo IB signature motif; other site 257314003210 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257314003211 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257314003212 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 257314003213 dimerization interface [polypeptide binding]; other site 257314003214 EDD domain protein, DegV family; Region: DegV; TIGR00762 257314003215 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 257314003216 MarR family; Region: MarR_2; pfam12802 257314003217 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 257314003218 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 257314003219 Domain of unknown function (DUF814); Region: DUF814; pfam05670 257314003220 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK12815 257314003221 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 257314003222 ATP-grasp domain; Region: ATP-grasp_4; cl17255 257314003223 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 257314003224 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 257314003225 ATP-grasp domain; Region: ATP-grasp_4; cl17255 257314003226 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 257314003227 IMP binding site; other site 257314003228 dimer interface [polypeptide binding]; other site 257314003229 interdomain contacts; other site 257314003230 partial ornithine binding site; other site 257314003231 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 257314003232 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 257314003233 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 257314003234 catalytic site [active] 257314003235 subunit interface [polypeptide binding]; other site 257314003236 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 257314003237 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 257314003238 RNA binding surface [nucleotide binding]; other site 257314003239 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 257314003240 active site 257314003241 lipoprotein signal peptidase; Provisional; Region: PRK14797 257314003242 lipoprotein signal peptidase; Provisional; Region: PRK14787 257314003243 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 257314003244 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 257314003245 Potassium binding sites [ion binding]; other site 257314003246 Cesium cation binding sites [ion binding]; other site 257314003247 EDD domain protein, DegV family; Region: DegV; TIGR00762 257314003248 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 257314003249 Acyltransferase family; Region: Acyl_transf_3; pfam01757 257314003250 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 257314003251 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 257314003252 active site 257314003253 metal binding site [ion binding]; metal-binding site 257314003254 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 257314003255 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 257314003256 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 257314003257 DivIVA protein; Region: DivIVA; pfam05103 257314003258 DivIVA domain; Region: DivI1A_domain; TIGR03544 257314003259 hypothetical protein; Provisional; Region: PRK13660 257314003260 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 257314003261 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 257314003262 Transglycosylase; Region: Transgly; pfam00912 257314003263 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 257314003264 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 257314003265 endonuclease III; Region: ENDO3c; smart00478 257314003266 minor groove reading motif; other site 257314003267 helix-hairpin-helix signature motif; other site 257314003268 substrate binding pocket [chemical binding]; other site 257314003269 active site 257314003270 Helix-turn-helix domain; Region: HTH_36; pfam13730 257314003271 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 257314003272 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 257314003273 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 257314003274 putative dimer interface [polypeptide binding]; other site 257314003275 putative anticodon binding site; other site 257314003276 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 257314003277 homodimer interface [polypeptide binding]; other site 257314003278 motif 1; other site 257314003279 motif 2; other site 257314003280 active site 257314003281 motif 3; other site 257314003282 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 257314003283 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 257314003284 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 257314003285 active site 257314003286 catalytic site [active] 257314003287 substrate binding site [chemical binding]; other site 257314003288 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 257314003289 ATP binding site [chemical binding]; other site 257314003290 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 257314003291 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 257314003292 Part of AAA domain; Region: AAA_19; pfam13245 257314003293 Family description; Region: UvrD_C_2; pfam13538 257314003294 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 257314003295 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 257314003296 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 257314003297 mevalonate kinase; Region: mevalon_kin; TIGR00549 257314003298 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 257314003299 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 257314003300 diphosphomevalonate decarboxylase; Region: PLN02407 257314003301 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 257314003302 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 257314003303 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 257314003304 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 257314003305 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 257314003306 homotetramer interface [polypeptide binding]; other site 257314003307 FMN binding site [chemical binding]; other site 257314003308 homodimer contacts [polypeptide binding]; other site 257314003309 putative active site [active] 257314003310 putative substrate binding site [chemical binding]; other site 257314003311 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 257314003312 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257314003313 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 257314003314 Walker A/P-loop; other site 257314003315 ATP binding site [chemical binding]; other site 257314003316 Q-loop/lid; other site 257314003317 ABC transporter signature motif; other site 257314003318 Walker B; other site 257314003319 D-loop; other site 257314003320 H-loop/switch region; other site 257314003321 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 257314003322 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257314003323 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314003324 Walker A/P-loop; other site 257314003325 ATP binding site [chemical binding]; other site 257314003326 Q-loop/lid; other site 257314003327 ABC transporter signature motif; other site 257314003328 Walker B; other site 257314003329 D-loop; other site 257314003330 H+ Antiporter protein; Region: 2A0121; TIGR00900 257314003331 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 257314003332 putative substrate translocation pore; other site 257314003333 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 257314003334 Sugar transport protein; Region: Sugar_transport; pfam06800 257314003335 D-ribose pyranase; Provisional; Region: PRK11797 257314003336 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 257314003337 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 257314003338 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 257314003339 homodimer interface [polypeptide binding]; other site 257314003340 NADP binding site [chemical binding]; other site 257314003341 substrate binding site [chemical binding]; other site 257314003342 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 257314003343 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 257314003344 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 257314003345 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_18; cd04677 257314003346 nudix motif; other site 257314003347 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 257314003348 hypothetical protein; Provisional; Region: PRK06762 257314003349 AAA domain; Region: AAA_33; pfam13671 257314003350 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 257314003351 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 257314003352 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_14; cd04672 257314003353 nudix motif; other site 257314003354 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 257314003355 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 257314003356 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 257314003357 Putative serine esterase (DUF676); Region: DUF676; pfam05057 257314003358 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 257314003359 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 257314003360 potential frameshift: common BLAST hit: gi|336053883|ref|YP_004562170.1| phospholipase D/transphosphatidylase 257314003361 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 257314003362 PLD-like domain; Region: PLDc_2; pfam13091 257314003363 homodimer interface [polypeptide binding]; other site 257314003364 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 257314003365 putative active site [active] 257314003366 catalytic site [active] 257314003367 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 257314003368 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 257314003369 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Sulfolobus solfataricus (Ss) and its homologs from archaea and bacteria; Region: NTP-PPase_SsMazG; cd11535 257314003370 metal binding site [ion binding]; metal-binding site 257314003371 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 257314003372 nucleotide binding site/active site [active] 257314003373 HIT family signature motif; other site 257314003374 catalytic residue [active] 257314003375 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 257314003376 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257314003377 Coenzyme A binding pocket [chemical binding]; other site 257314003378 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 257314003379 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 257314003380 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 257314003381 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 257314003382 addiction module toxin, RelE/StbE family; Region: RelE_StbE; TIGR02385 257314003383 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257314003384 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 257314003385 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 257314003386 Walker A/P-loop; other site 257314003387 ATP binding site [chemical binding]; other site 257314003388 Q-loop/lid; other site 257314003389 ABC transporter signature motif; other site 257314003390 Walker B; other site 257314003391 D-loop; other site 257314003392 H-loop/switch region; other site 257314003393 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 257314003394 FMN binding site [chemical binding]; other site 257314003395 dimer interface [polypeptide binding]; other site 257314003396 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 257314003397 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257314003398 putative substrate translocation pore; other site 257314003399 enolase; Provisional; Region: eno; PRK00077 257314003400 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 257314003401 dimer interface [polypeptide binding]; other site 257314003402 metal binding site [ion binding]; metal-binding site 257314003403 substrate binding pocket [chemical binding]; other site 257314003404 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257314003405 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 257314003406 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 257314003407 Walker A/P-loop; other site 257314003408 ATP binding site [chemical binding]; other site 257314003409 Q-loop/lid; other site 257314003410 ABC transporter signature motif; other site 257314003411 Walker B; other site 257314003412 D-loop; other site 257314003413 H-loop/switch region; other site 257314003414 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314003415 Q-loop/lid; other site 257314003416 ABC transporter signature motif; other site 257314003417 Walker B; other site 257314003418 D-loop; other site 257314003419 H-loop/switch region; other site 257314003420 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 257314003421 HflC protein; Region: hflC; TIGR01932 257314003422 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 257314003423 glycerate kinase; Region: TIGR00045 257314003424 hypothetical protein; Provisional; Region: PRK09273 257314003425 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 257314003426 SnoaL-like domain; Region: SnoaL_2; pfam12680 257314003427 potential frameshift: common BLAST hit: gi|315038775|ref|YP_004032343.1| NADH-dependent oxidoreductase 257314003428 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 257314003429 phosphate binding site [ion binding]; other site 257314003430 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 257314003431 Nitroreductase-like family 1. 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_1; cd02137 257314003432 dimer interface [polypeptide binding]; other site 257314003433 FMN binding site [chemical binding]; other site 257314003434 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 257314003435 potential frameshift: common BLAST hit: gi|295693445|ref|YP_003602055.1| permease of the major facilitator superfamily (efflux) 257314003436 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 257314003437 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257314003438 putative substrate translocation pore; other site 257314003439 Transcriptional regulators [Transcription]; Region: PurR; COG1609 257314003440 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 257314003441 DNA binding site [nucleotide binding] 257314003442 domain linker motif; other site 257314003443 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 257314003444 dimerization interface [polypeptide binding]; other site 257314003445 ligand binding site [chemical binding]; other site 257314003446 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 257314003447 active site turn [active] 257314003448 phosphorylation site [posttranslational modification] 257314003449 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 257314003450 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 257314003451 active site turn [active] 257314003452 phosphorylation site [posttranslational modification] 257314003453 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 257314003454 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 257314003455 HPr interaction site; other site 257314003456 glycerol kinase (GK) interaction site [polypeptide binding]; other site 257314003457 active site 257314003458 phosphorylation site [posttranslational modification] 257314003459 CAT RNA binding domain; Region: CAT_RBD; smart01061 257314003460 transcriptional antiterminator BglG; Provisional; Region: PRK09772 257314003461 PRD domain; Region: PRD; pfam00874 257314003462 PRD domain; Region: PRD; pfam00874 257314003463 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 257314003464 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; cd00578 257314003465 hexamer (dimer of trimers) interface [polypeptide binding]; other site 257314003466 substrate binding site [chemical binding]; other site 257314003467 trimer interface [polypeptide binding]; other site 257314003468 Mn binding site [ion binding]; other site 257314003469 Transcriptional regulators [Transcription]; Region: PurR; COG1609 257314003470 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 257314003471 DNA binding site [nucleotide binding] 257314003472 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 257314003473 ligand binding site [chemical binding]; other site 257314003474 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 257314003475 TPP-binding site [chemical binding]; other site 257314003476 dimer interface [polypeptide binding]; other site 257314003477 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 257314003478 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 257314003479 PYR/PP interface [polypeptide binding]; other site 257314003480 dimer interface [polypeptide binding]; other site 257314003481 TPP binding site [chemical binding]; other site 257314003482 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 257314003483 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 257314003484 Uncharacterized subgroup; belongs to the glycerol kinases subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GK_1; cd10427 257314003485 N- and C-terminal domain interface [polypeptide binding]; other site 257314003486 active site 257314003487 MgATP binding site [chemical binding]; other site 257314003488 catalytic site [active] 257314003489 metal binding site [ion binding]; metal-binding site 257314003490 putative glycerol binding site [chemical binding]; other site 257314003491 putative homotetramer interface [polypeptide binding]; other site 257314003492 putative homodimer interface [polypeptide binding]; other site 257314003493 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 257314003494 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 257314003495 active site 257314003496 Zn binding site [ion binding]; other site 257314003497 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 257314003498 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 257314003499 active site 257314003500 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257314003501 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 257314003502 putative ADP-binding pocket [chemical binding]; other site 257314003503 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 257314003504 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 257314003505 Isochorismatase family; Region: Isochorismatase; pfam00857 257314003506 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 257314003507 catalytic triad [active] 257314003508 conserved cis-peptide bond; other site 257314003509 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 257314003510 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 257314003511 active site 257314003512 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 257314003513 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 257314003514 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 257314003515 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 257314003516 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 257314003517 ATP-grasp domain; Region: ATP-grasp_4; cl17255 257314003518 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 257314003519 IMP binding site; other site 257314003520 dimer interface [polypeptide binding]; other site 257314003521 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 257314003522 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 257314003523 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 257314003524 catalytic site [active] 257314003525 subunit interface [polypeptide binding]; other site 257314003526 dihydroorotase; Validated; Region: pyrC; PRK09357 257314003527 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 257314003528 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 257314003529 active site 257314003530 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 257314003531 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 257314003532 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 257314003533 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 257314003534 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 257314003535 active site 257314003536 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 257314003537 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 257314003538 heterodimer interface [polypeptide binding]; other site 257314003539 active site 257314003540 FMN binding site [chemical binding]; other site 257314003541 homodimer interface [polypeptide binding]; other site 257314003542 substrate binding site [chemical binding]; other site 257314003543 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 257314003544 active site 257314003545 dimer interface [polypeptide binding]; other site 257314003546 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 257314003547 active site 257314003548 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 257314003549 sugar phosphate phosphatase; Provisional; Region: PRK10513 257314003550 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 257314003551 active site 257314003552 motif I; other site 257314003553 motif II; other site 257314003554 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 257314003555 Uncharacterized conserved protein [Function unknown]; Region: COG1434 257314003556 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 257314003557 putative active site [active] 257314003558 hypothetical protein; Provisional; Region: PRK00967 257314003559 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 257314003560 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 257314003561 S-adenosylmethionine binding site [chemical binding]; other site 257314003562 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 257314003563 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 257314003564 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 257314003565 Catalytic site [active] 257314003566 Clostridial binary toxin B/anthrax toxin PA; Region: Binary_toxB; pfam03495 257314003567 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 257314003568 Homeodomain-like domain; Region: HTH_23; cl17451 257314003569 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 257314003570 Walker A/P-loop; other site 257314003571 ATP binding site [chemical binding]; other site 257314003572 ABC transporter; Region: ABC_tran; pfam00005 257314003573 Q-loop/lid; other site 257314003574 ABC transporter signature motif; other site 257314003575 Walker B; other site 257314003576 D-loop; other site 257314003577 H-loop/switch region; other site 257314003578 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 257314003579 non-specific DNA binding site [nucleotide binding]; other site 257314003580 salt bridge; other site 257314003581 sequence-specific DNA binding site [nucleotide binding]; other site 257314003582 Integrase core domain; Region: rve_2; pfam13333 257314003583 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 257314003584 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 257314003585 Walker A/P-loop; other site 257314003586 ATP binding site [chemical binding]; other site 257314003587 ABC transporter signature motif; other site 257314003588 Walker B; other site 257314003589 D-loop; other site 257314003590 H-loop/switch region; other site 257314003591 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257314003592 DNA-binding site [nucleotide binding]; DNA binding site 257314003593 peptidase T; Region: peptidase-T; TIGR01882 257314003594 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 257314003595 metal binding site [ion binding]; metal-binding site 257314003596 dimer interface [polypeptide binding]; other site 257314003597 Uncharacterized conserved protein [Function unknown]; Region: COG0327 257314003598 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 257314003599 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 257314003600 Family of unknown function (DUF633); Region: DUF633; pfam04816 257314003601 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 257314003602 Transposase; Region: DDE_Tnp_ISL3; pfam01610 257314003603 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 257314003604 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 257314003605 substrate binding pocket [chemical binding]; other site 257314003606 membrane-bound complex binding site; other site 257314003607 hinge residues; other site 257314003608 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 257314003609 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 257314003610 Walker A/P-loop; other site 257314003611 ATP binding site [chemical binding]; other site 257314003612 Q-loop/lid; other site 257314003613 ABC transporter signature motif; other site 257314003614 Walker B; other site 257314003615 D-loop; other site 257314003616 H-loop/switch region; other site 257314003617 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 257314003618 dimer interface [polypeptide binding]; other site 257314003619 conserved gate region; other site 257314003620 putative PBP binding loops; other site 257314003621 ABC-ATPase subunit interface; other site 257314003622 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 257314003623 dimer interface [polypeptide binding]; other site 257314003624 conserved gate region; other site 257314003625 putative PBP binding loops; other site 257314003626 ABC-ATPase subunit interface; other site 257314003627 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 257314003628 large tegument protein UL36; Provisional; Region: PHA03247 257314003629 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 257314003630 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 257314003631 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 257314003632 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 257314003633 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 257314003634 DNA binding residues [nucleotide binding] 257314003635 DNA primase; Validated; Region: dnaG; PRK05667 257314003636 CHC2 zinc finger; Region: zf-CHC2; cl17510 257314003637 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 257314003638 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 257314003639 active site 257314003640 metal binding site [ion binding]; metal-binding site 257314003641 interdomain interaction site; other site 257314003642 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 257314003643 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 257314003644 DALR anticodon binding domain; Region: DALR_1; pfam05746 257314003645 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 257314003646 motif 1; other site 257314003647 dimer interface [polypeptide binding]; other site 257314003648 active site 257314003649 motif 2; other site 257314003650 motif 3; other site 257314003651 Recombination protein O N terminal; Region: RecO_N; pfam11967 257314003652 DNA repair protein RecO; Region: reco; TIGR00613 257314003653 Recombination protein O C terminal; Region: RecO_C; pfam02565 257314003654 GTPase Era; Reviewed; Region: era; PRK00089 257314003655 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 257314003656 G1 box; other site 257314003657 GTP/Mg2+ binding site [chemical binding]; other site 257314003658 Switch I region; other site 257314003659 G2 box; other site 257314003660 Switch II region; other site 257314003661 G3 box; other site 257314003662 G4 box; other site 257314003663 G5 box; other site 257314003664 metal-binding heat shock protein; Provisional; Region: PRK00016 257314003665 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 257314003666 PhoH-like protein; Region: PhoH; pfam02562 257314003667 Yqey-like protein; Region: YqeY; pfam09424 257314003668 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 257314003669 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 257314003670 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 257314003671 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 257314003672 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 257314003673 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 257314003674 Uncharacterized conserved protein [Function unknown]; Region: COG1284 257314003675 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 257314003676 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 257314003677 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 257314003678 methionine sulfoxide reductase A; Provisional; Region: PRK14054 257314003679 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 257314003680 active site 257314003681 catalytic triad [active] 257314003682 oxyanion hole [active] 257314003683 methionine sulfoxide reductase B; Provisional; Region: PRK00222 257314003684 SelR domain; Region: SelR; pfam01641 257314003685 aromatic amino acid aminotransferase; Validated; Region: PRK07309 257314003686 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 257314003687 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257314003688 homodimer interface [polypeptide binding]; other site 257314003689 catalytic residue [active] 257314003690 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 257314003691 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 257314003692 dimer interface [polypeptide binding]; other site 257314003693 anticodon binding site; other site 257314003694 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 257314003695 homodimer interface [polypeptide binding]; other site 257314003696 motif 1; other site 257314003697 active site 257314003698 motif 2; other site 257314003699 GAD domain; Region: GAD; pfam02938 257314003700 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 257314003701 active site 257314003702 motif 3; other site 257314003703 histidyl-tRNA synthetase; Region: hisS; TIGR00442 257314003704 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 257314003705 dimer interface [polypeptide binding]; other site 257314003706 motif 1; other site 257314003707 active site 257314003708 motif 2; other site 257314003709 motif 3; other site 257314003710 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 257314003711 anticodon binding site; other site 257314003712 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 257314003713 putative active site [active] 257314003714 dimerization interface [polypeptide binding]; other site 257314003715 putative tRNAtyr binding site [nucleotide binding]; other site 257314003716 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 257314003717 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 257314003718 Zn2+ binding site [ion binding]; other site 257314003719 Mg2+ binding site [ion binding]; other site 257314003720 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 257314003721 synthetase active site [active] 257314003722 NTP binding site [chemical binding]; other site 257314003723 metal binding site [ion binding]; metal-binding site 257314003724 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 257314003725 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 257314003726 Methyltransferase domain; Region: Methyltransf_31; pfam13847 257314003727 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 257314003728 S-adenosylmethionine binding site [chemical binding]; other site 257314003729 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 257314003730 putative deacylase active site [active] 257314003731 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 257314003732 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 257314003733 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 257314003734 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 257314003735 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 257314003736 motif II; other site 257314003737 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 257314003738 active site 257314003739 homodimer interface [polypeptide binding]; other site 257314003740 Uncharacterized conserved protein [Function unknown]; Region: COG2966 257314003741 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 257314003742 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 257314003743 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 257314003744 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 257314003745 tetramer (dimer of dimers) interface [polypeptide binding]; other site 257314003746 NAD binding site [chemical binding]; other site 257314003747 dimer interface [polypeptide binding]; other site 257314003748 substrate binding site [chemical binding]; other site 257314003749 L-aspartate oxidase; Provisional; Region: PRK06175 257314003750 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 257314003751 Predicted oxidoreductase [General function prediction only]; Region: COG3573 257314003752 fumarate hydratase; Reviewed; Region: fumC; PRK00485 257314003753 Class II fumarases; Region: Fumarase_classII; cd01362 257314003754 active site 257314003755 tetramer interface [polypeptide binding]; other site 257314003756 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 257314003757 dimer interface [polypeptide binding]; other site 257314003758 conserved gate region; other site 257314003759 ABC-ATPase subunit interface; other site 257314003760 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 257314003761 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 257314003762 Walker A/P-loop; other site 257314003763 ATP binding site [chemical binding]; other site 257314003764 Q-loop/lid; other site 257314003765 ABC transporter signature motif; other site 257314003766 Walker B; other site 257314003767 D-loop; other site 257314003768 H-loop/switch region; other site 257314003769 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 257314003770 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 257314003771 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 257314003772 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; pfam13930 257314003773 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 257314003774 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 257314003775 non-specific DNA binding site [nucleotide binding]; other site 257314003776 salt bridge; other site 257314003777 sequence-specific DNA binding site [nucleotide binding]; other site 257314003778 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 257314003779 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 257314003780 active site 257314003781 ABC transporter; Region: ABC_tran_2; pfam12848 257314003782 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 257314003783 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257314003784 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 257314003785 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314003786 Walker A/P-loop; other site 257314003787 ATP binding site [chemical binding]; other site 257314003788 Q-loop/lid; other site 257314003789 ABC transporter signature motif; other site 257314003790 Walker B; other site 257314003791 D-loop; other site 257314003792 H-loop/switch region; other site 257314003793 enolase; Provisional; Region: eno; PRK00077 257314003794 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 257314003795 dimer interface [polypeptide binding]; other site 257314003796 metal binding site [ion binding]; metal-binding site 257314003797 substrate binding pocket [chemical binding]; other site 257314003798 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 257314003799 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 257314003800 active site 257314003801 Lactobacillus johnsonii prophage Lj928 257314003802 Cpl-1 lysin (also known as Cpl-9 lysozyme / muramidase) is a bacterial cell wall endolysin encoded by the pneumococcal bacteriophage Cp-1, which cleaves the glycosidic N-acetylmuramoyl-(beta1,4)-N-acetylglucosamine bonds of the pneumococcal glycan chain; Region: GH25_Cpl1-like; cd06415 257314003803 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 257314003804 active site 257314003805 Bacterial SH3 domain homologues; Region: SH3b; smart00287 257314003806 Phage holin protein (Holin_LLH); Region: Holin_LLH; pfam09682 257314003807 YfhG lipoprotein; Region: Lipoprotein_20; cl08141 257314003808 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 257314003809 active site 257314003810 catalytic triad [active] 257314003811 oxyanion hole [active] 257314003812 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 257314003813 Peptidase family M23; Region: Peptidase_M23; pfam01551 257314003814 tape measure domain; Region: tape_meas_nterm; TIGR02675 257314003815 Phage major tail protein 2; Region: Phage_tail_2; pfam06199 257314003816 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 257314003817 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 257314003818 Phage gp6-like head-tail connector protein; Region: Phage_connect_1; pfam05135 257314003819 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 257314003820 YjcQ protein; Region: YjcQ; pfam09639 257314003821 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 257314003822 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 257314003823 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 257314003824 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 257314003825 Phage terminase large subunit; Region: Terminase_3; pfam04466 257314003826 Terminase small subunit; Region: Terminase_2; pfam03592 257314003827 Superinfection exclusion protein B; Region: SieB; pfam14163 257314003828 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 257314003829 Protein of unknown function (DUF2758); Region: DUF2758; pfam10957 257314003830 ERF superfamily; Region: ERF; pfam04404 257314003831 Protein of unknown function (DUF1351); Region: DUF1351; pfam07083 257314003832 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 257314003833 salt bridge; other site 257314003834 non-specific DNA binding site [nucleotide binding]; other site 257314003835 sequence-specific DNA binding site [nucleotide binding]; other site 257314003836 Uncharacterized protein conserved in bacteria (DUF2321); Region: DUF2321; pfam10083 257314003837 Prophage antirepressor [Transcription]; Region: COG3617 257314003838 BRO family, N-terminal domain; Region: Bro-N; smart01040 257314003839 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 257314003840 Protein of unknown function (DUF739); Region: DUF739; pfam05339 257314003841 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 257314003842 non-specific DNA binding site [nucleotide binding]; other site 257314003843 salt bridge; other site 257314003844 sequence-specific DNA binding site [nucleotide binding]; other site 257314003845 Peptidase family M48; Region: Peptidase_M48; cl12018 257314003846 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 257314003847 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 257314003848 Int/Topo IB signature motif; other site 257314003849 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257314003850 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257314003851 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 257314003852 dimerization interface [polypeptide binding]; other site 257314003853 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 257314003854 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 257314003855 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 257314003856 motif II; other site 257314003857 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 257314003858 putative substrate translocation pore; other site 257314003859 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257314003860 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 257314003861 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 257314003862 folate binding site [chemical binding]; other site 257314003863 NADP+ binding site [chemical binding]; other site 257314003864 thymidylate synthase; Region: thym_sym; TIGR03284 257314003865 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 257314003866 dimerization interface [polypeptide binding]; other site 257314003867 active site 257314003868 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 257314003869 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 257314003870 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 257314003871 putative active site [active] 257314003872 catalytic site [active] 257314003873 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 257314003874 putative active site [active] 257314003875 catalytic site [active] 257314003876 inner membrane transporter YjeM; Provisional; Region: PRK15238 257314003877 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 257314003878 active site 257314003879 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 257314003880 DHH family; Region: DHH; pfam01368 257314003881 DHHA1 domain; Region: DHHA1; pfam02272 257314003882 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 257314003883 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 257314003884 active site 257314003885 catalytic site [active] 257314003886 GTP-binding protein LepA; Provisional; Region: PRK05433 257314003887 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 257314003888 G1 box; other site 257314003889 putative GEF interaction site [polypeptide binding]; other site 257314003890 GTP/Mg2+ binding site [chemical binding]; other site 257314003891 Switch I region; other site 257314003892 G2 box; other site 257314003893 G3 box; other site 257314003894 Switch II region; other site 257314003895 G4 box; other site 257314003896 G5 box; other site 257314003897 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 257314003898 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 257314003899 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 257314003900 chaperone protein DnaJ; Provisional; Region: PRK14276 257314003901 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 257314003902 HSP70 interaction site [polypeptide binding]; other site 257314003903 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 257314003904 substrate binding site [polypeptide binding]; other site 257314003905 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 257314003906 Zn binding sites [ion binding]; other site 257314003907 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 257314003908 dimer interface [polypeptide binding]; other site 257314003909 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 257314003910 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 257314003911 nucleotide binding site [chemical binding]; other site 257314003912 NEF interaction site [polypeptide binding]; other site 257314003913 SBD interface [polypeptide binding]; other site 257314003914 GrpE; Region: GrpE; pfam01025 257314003915 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 257314003916 dimer interface [polypeptide binding]; other site 257314003917 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 257314003918 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 257314003919 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 257314003920 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 257314003921 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257314003922 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257314003923 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 257314003924 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 257314003925 active site 257314003926 Riboflavin kinase; Region: Flavokinase; pfam01687 257314003927 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 257314003928 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 257314003929 RNA binding site [nucleotide binding]; other site 257314003930 active site 257314003931 ribosome-binding factor A; Provisional; Region: PRK13818 257314003932 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 257314003933 translation initiation factor IF-2; Validated; Region: infB; PRK05306 257314003934 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 257314003935 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 257314003936 G1 box; other site 257314003937 putative GEF interaction site [polypeptide binding]; other site 257314003938 GTP/Mg2+ binding site [chemical binding]; other site 257314003939 Switch I region; other site 257314003940 G2 box; other site 257314003941 G3 box; other site 257314003942 Switch II region; other site 257314003943 G4 box; other site 257314003944 G5 box; other site 257314003945 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 257314003946 Translation-initiation factor 2; Region: IF-2; pfam11987 257314003947 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 257314003948 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 257314003949 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 257314003950 putative RNA binding cleft [nucleotide binding]; other site 257314003951 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 257314003952 NusA N-terminal domain; Region: NusA_N; pfam08529 257314003953 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 257314003954 RNA binding site [nucleotide binding]; other site 257314003955 homodimer interface [polypeptide binding]; other site 257314003956 NusA-like KH domain; Region: KH_5; pfam13184 257314003957 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 257314003958 G-X-X-G motif; other site 257314003959 ribosome maturation protein RimP; Reviewed; Region: PRK00092 257314003960 Sm and related proteins; Region: Sm_like; cl00259 257314003961 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 257314003962 putative oligomer interface [polypeptide binding]; other site 257314003963 putative RNA binding site [nucleotide binding]; other site 257314003964 DNA polymerase III PolC; Validated; Region: polC; PRK00448 257314003965 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 257314003966 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 257314003967 generic binding surface II; other site 257314003968 generic binding surface I; other site 257314003969 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 257314003970 active site 257314003971 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 257314003972 active site 257314003973 catalytic site [active] 257314003974 substrate binding site [chemical binding]; other site 257314003975 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 257314003976 prolyl-tRNA synthetase; Provisional; Region: PRK09194 257314003977 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 257314003978 dimer interface [polypeptide binding]; other site 257314003979 motif 1; other site 257314003980 active site 257314003981 motif 2; other site 257314003982 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 257314003983 putative deacylase active site [active] 257314003984 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 257314003985 active site 257314003986 motif 3; other site 257314003987 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 257314003988 anticodon binding site; other site 257314003989 RIP metalloprotease RseP; Region: TIGR00054 257314003990 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 257314003991 active site 257314003992 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 257314003993 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 257314003994 protein binding site [polypeptide binding]; other site 257314003995 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 257314003996 putative substrate binding region [chemical binding]; other site 257314003997 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 257314003998 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 257314003999 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14830 257314004000 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 257314004001 catalytic residue [active] 257314004002 putative FPP diphosphate binding site; other site 257314004003 putative FPP binding hydrophobic cleft; other site 257314004004 dimer interface [polypeptide binding]; other site 257314004005 putative IPP diphosphate binding site; other site 257314004006 ribosome recycling factor; Reviewed; Region: frr; PRK00083 257314004007 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 257314004008 hinge region; other site 257314004009 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 257314004010 putative nucleotide binding site [chemical binding]; other site 257314004011 uridine monophosphate binding site [chemical binding]; other site 257314004012 homohexameric interface [polypeptide binding]; other site 257314004013 elongation factor Ts; Provisional; Region: tsf; PRK09377 257314004014 UBA/TS-N domain; Region: UBA; pfam00627 257314004015 Elongation factor TS; Region: EF_TS; pfam00889 257314004016 Elongation factor TS; Region: EF_TS; pfam00889 257314004017 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 257314004018 rRNA interaction site [nucleotide binding]; other site 257314004019 S8 interaction site; other site 257314004020 putative laminin-1 binding site; other site 257314004021 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 257314004022 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 257314004023 S-adenosylmethionine binding site [chemical binding]; other site 257314004024 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 257314004025 GIY-YIG motif/motif A; other site 257314004026 putative active site [active] 257314004027 putative metal binding site [ion binding]; other site 257314004028 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 257314004029 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 257314004030 putative acyl-acceptor binding pocket; other site 257314004031 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 257314004032 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 257314004033 S-adenosylmethionine binding site [chemical binding]; other site 257314004034 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 257314004035 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257314004036 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 257314004037 Walker A/P-loop; other site 257314004038 ATP binding site [chemical binding]; other site 257314004039 Q-loop/lid; other site 257314004040 ABC transporter signature motif; other site 257314004041 Walker B; other site 257314004042 D-loop; other site 257314004043 H-loop/switch region; other site 257314004044 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257314004045 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 257314004046 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314004047 Walker A/P-loop; other site 257314004048 ATP binding site [chemical binding]; other site 257314004049 Q-loop/lid; other site 257314004050 ABC transporter signature motif; other site 257314004051 Walker B; other site 257314004052 D-loop; other site 257314004053 H-loop/switch region; other site 257314004054 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 257314004055 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 257314004056 LexA repressor; Validated; Region: PRK00215 257314004057 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 257314004058 putative DNA binding site [nucleotide binding]; other site 257314004059 putative Zn2+ binding site [ion binding]; other site 257314004060 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 257314004061 Catalytic site [active] 257314004062 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 257314004063 active site 257314004064 Fe-S cluster binding site [ion binding]; other site 257314004065 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 257314004066 active site 257314004067 Ap4A binding cleft/pocket [chemical binding]; other site 257314004068 P4 phosphate binding site; other site 257314004069 nudix motif; other site 257314004070 putative P2/P3 phosphate binding site [ion binding]; other site 257314004071 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 257314004072 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 257314004073 Catalytic site [active] 257314004074 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 257314004075 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 257314004076 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 257314004077 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 257314004078 RimM N-terminal domain; Region: RimM; pfam01782 257314004079 PRC-barrel domain; Region: PRC; pfam05239 257314004080 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 257314004081 signal recognition particle protein; Provisional; Region: PRK10867 257314004082 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 257314004083 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 257314004084 P loop; other site 257314004085 GTP binding site [chemical binding]; other site 257314004086 Signal peptide binding domain; Region: SRP_SPB; pfam02978 257314004087 putative DNA-binding protein; Validated; Region: PRK00118 257314004088 Peptidase family C69; Region: Peptidase_C69; pfam03577 257314004089 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 257314004090 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 257314004091 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 257314004092 P loop; other site 257314004093 GTP binding site [chemical binding]; other site 257314004094 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 257314004095 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 257314004096 Walker A/P-loop; other site 257314004097 ATP binding site [chemical binding]; other site 257314004098 Q-loop/lid; other site 257314004099 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 257314004100 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 257314004101 ABC transporter signature motif; other site 257314004102 Walker B; other site 257314004103 D-loop; other site 257314004104 H-loop/switch region; other site 257314004105 ribonuclease III; Reviewed; Region: rnc; PRK00102 257314004106 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 257314004107 dimerization interface [polypeptide binding]; other site 257314004108 active site 257314004109 metal binding site [ion binding]; metal-binding site 257314004110 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 257314004111 dsRNA binding site [nucleotide binding]; other site 257314004112 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 257314004113 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 257314004114 peptide binding site [polypeptide binding]; other site 257314004115 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 257314004116 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 257314004117 peptide binding site [polypeptide binding]; other site 257314004118 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 257314004119 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 257314004120 dimer interface [polypeptide binding]; other site 257314004121 conserved gate region; other site 257314004122 putative PBP binding loops; other site 257314004123 ABC-ATPase subunit interface; other site 257314004124 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 257314004125 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 257314004126 dimer interface [polypeptide binding]; other site 257314004127 conserved gate region; other site 257314004128 putative PBP binding loops; other site 257314004129 ABC-ATPase subunit interface; other site 257314004130 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257314004131 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 257314004132 Walker A/P-loop; other site 257314004133 ATP binding site [chemical binding]; other site 257314004134 Q-loop/lid; other site 257314004135 ABC transporter signature motif; other site 257314004136 Walker B; other site 257314004137 D-loop; other site 257314004138 H-loop/switch region; other site 257314004139 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 257314004140 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 257314004141 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257314004142 Walker A/P-loop; other site 257314004143 ATP binding site [chemical binding]; other site 257314004144 Q-loop/lid; other site 257314004145 ABC transporter signature motif; other site 257314004146 Walker B; other site 257314004147 D-loop; other site 257314004148 H-loop/switch region; other site 257314004149 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 257314004150 acyl carrier protein; Provisional; Region: acpP; PRK00982 257314004151 putative phosphate acyltransferase; Provisional; Region: PRK05331 257314004152 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 257314004153 Y-family of DNA polymerases; Region: PolY; cl12025 257314004154 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 257314004155 ssDNA binding site; other site 257314004156 generic binding surface II; other site 257314004157 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 257314004158 ATP binding site [chemical binding]; other site 257314004159 putative Mg++ binding site [ion binding]; other site 257314004160 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 257314004161 nucleotide binding region [chemical binding]; other site 257314004162 ATP-binding site [chemical binding]; other site 257314004163 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 257314004164 DAK2 domain; Region: Dak2; pfam02734 257314004165 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 257314004166 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 257314004167 Thiamine pyrophosphokinase; Region: TPK; cd07995 257314004168 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 257314004169 active site 257314004170 dimerization interface [polypeptide binding]; other site 257314004171 thiamine binding site [chemical binding]; other site 257314004172 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 257314004173 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 257314004174 substrate binding site [chemical binding]; other site 257314004175 hexamer interface [polypeptide binding]; other site 257314004176 metal binding site [ion binding]; metal-binding site 257314004177 GTPase RsgA; Reviewed; Region: PRK00098 257314004178 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 257314004179 RNA binding site [nucleotide binding]; other site 257314004180 homodimer interface [polypeptide binding]; other site 257314004181 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 257314004182 GTPase/Zn-binding domain interface [polypeptide binding]; other site 257314004183 GTP/Mg2+ binding site [chemical binding]; other site 257314004184 G4 box; other site 257314004185 G1 box; other site 257314004186 Switch I region; other site 257314004187 G2 box; other site 257314004188 G3 box; other site 257314004189 Switch II region; other site 257314004190 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 257314004191 Catalytic domain of Protein Kinases; Region: PKc; cd00180 257314004192 active site 257314004193 ATP binding site [chemical binding]; other site 257314004194 substrate binding site [chemical binding]; other site 257314004195 activation loop (A-loop); other site 257314004196 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 257314004197 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 257314004198 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 257314004199 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 257314004200 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 257314004201 Protein phosphatase 2C; Region: PP2C; pfam00481 257314004202 active site 257314004203 16S rRNA methyltransferase B; Provisional; Region: PRK14902 257314004204 NusB family; Region: NusB; pfam01029 257314004205 putative RNA binding site [nucleotide binding]; other site 257314004206 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 257314004207 S-adenosylmethionine binding site [chemical binding]; other site 257314004208 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 257314004209 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 257314004210 putative active site [active] 257314004211 substrate binding site [chemical binding]; other site 257314004212 putative cosubstrate binding site; other site 257314004213 catalytic site [active] 257314004214 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 257314004215 substrate binding site [chemical binding]; other site 257314004216 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 257314004217 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 257314004218 ATP binding site [chemical binding]; other site 257314004219 putative Mg++ binding site [ion binding]; other site 257314004220 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 257314004221 nucleotide binding region [chemical binding]; other site 257314004222 ATP-binding site [chemical binding]; other site 257314004223 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 257314004224 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 257314004225 catalytic site [active] 257314004226 G-X2-G-X-G-K; other site 257314004227 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 257314004228 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 257314004229 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 257314004230 Walker A/P-loop; other site 257314004231 ATP binding site [chemical binding]; other site 257314004232 Q-loop/lid; other site 257314004233 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 257314004234 ABC transporter signature motif; other site 257314004235 Walker B; other site 257314004236 D-loop; other site 257314004237 H-loop/switch region; other site 257314004238 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 257314004239 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 257314004240 RNA binding surface [nucleotide binding]; other site 257314004241 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 257314004242 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 257314004243 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 257314004244 substrate binding pocket [chemical binding]; other site 257314004245 chain length determination region; other site 257314004246 substrate-Mg2+ binding site; other site 257314004247 catalytic residues [active] 257314004248 aspartate-rich region 1; other site 257314004249 active site lid residues [active] 257314004250 aspartate-rich region 2; other site 257314004251 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 257314004252 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 257314004253 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 257314004254 generic binding surface II; other site 257314004255 generic binding surface I; other site 257314004256 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 257314004257 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 257314004258 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 257314004259 homodimer interface [polypeptide binding]; other site 257314004260 NADP binding site [chemical binding]; other site 257314004261 substrate binding site [chemical binding]; other site 257314004262 transcription antitermination factor NusB; Region: nusB; TIGR01951 257314004263 putative RNA binding site [nucleotide binding]; other site 257314004264 Asp23 family; Region: Asp23; pfam03780 257314004265 elongation factor P; Validated; Region: PRK00529 257314004266 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 257314004267 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 257314004268 RNA binding site [nucleotide binding]; other site 257314004269 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 257314004270 RNA binding site [nucleotide binding]; other site 257314004271 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 257314004272 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 257314004273 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 257314004274 active site 257314004275 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 257314004276 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 257314004277 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 257314004278 ArsC family; Region: ArsC; pfam03960 257314004279 putative ArsC-like catalytic residues; other site 257314004280 putative TRX-like catalytic residues [active] 257314004281 Uncharacterized conserved protein [Function unknown]; Region: COG1284 257314004282 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 257314004283 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 257314004284 potential frameshift: common BLAST hit: gi|295693211|ref|YP_003601821.1| v-type sodium ATP synthase subunit 257314004285 Phycobilisome protein; Region: Phycobilisome; cl08227 257314004286 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 257314004287 4-oxalocrotonate tautomerase; Provisional; Region: PRK02220 257314004288 active site 1 [active] 257314004289 dimer interface [polypeptide binding]; other site 257314004290 hexamer interface [polypeptide binding]; other site 257314004291 active site 2 [active] 257314004292 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 257314004293 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 257314004294 dimer interface [polypeptide binding]; other site 257314004295 pyridoxal binding site [chemical binding]; other site 257314004296 ATP binding site [chemical binding]; other site 257314004297 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 257314004298 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 257314004299 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 257314004300 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 257314004301 potential frameshift: common BLAST hit: gi|116629389|ref|YP_814561.1| AraC-like transcriptional regulator 257314004302 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 257314004303 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 257314004304 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 257314004305 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 257314004306 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 257314004307 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 surface protein substrate is...; Region: Sortase; cd00004 257314004308 active site 257314004309 catalytic site [active] 257314004310 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 257314004311 trimer interface [polypeptide binding]; other site 257314004312 active site 257314004313 G bulge; other site 257314004314 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 257314004315 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 257314004316 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 257314004317 peptide binding site [polypeptide binding]; other site 257314004318 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 257314004319 DNA binding residues [nucleotide binding] 257314004320 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 257314004321 putative dimer interface [polypeptide binding]; other site 257314004322 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 257314004323 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257314004324 putative substrate translocation pore; other site 257314004325 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 257314004326 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 257314004327 Fic/DOC family; Region: Fic; cl00960 257314004328 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 257314004329 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 257314004330 glutaminase active site [active] 257314004331 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 257314004332 dimer interface [polypeptide binding]; other site 257314004333 active site 257314004334 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 257314004335 dimer interface [polypeptide binding]; other site 257314004336 active site 257314004337 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 257314004338 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257314004339 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314004340 Walker A/P-loop; other site 257314004341 ATP binding site [chemical binding]; other site 257314004342 Q-loop/lid; other site 257314004343 ABC transporter signature motif; other site 257314004344 Walker B; other site 257314004345 D-loop; other site 257314004346 H-loop/switch region; other site 257314004347 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 257314004348 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 257314004349 active site 257314004350 motif I; other site 257314004351 motif II; other site 257314004352 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 257314004353 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 257314004354 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 257314004355 Zn binding site [ion binding]; other site 257314004356 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 257314004357 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; smart00940 257314004358 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 257314004359 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 257314004360 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 257314004361 dimer interface [polypeptide binding]; other site 257314004362 phosphorylation site [posttranslational modification] 257314004363 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 257314004364 ATP binding site [chemical binding]; other site 257314004365 Mg2+ binding site [ion binding]; other site 257314004366 G-X-G motif; other site 257314004367 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 257314004368 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 257314004369 active site 257314004370 phosphorylation site [posttranslational modification] 257314004371 intermolecular recognition site; other site 257314004372 dimerization interface [polypeptide binding]; other site 257314004373 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 257314004374 DNA binding site [nucleotide binding] 257314004375 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 257314004376 synthetase active site [active] 257314004377 NTP binding site [chemical binding]; other site 257314004378 metal binding site [ion binding]; metal-binding site 257314004379 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 257314004380 OsmC-like protein; Region: OsmC; pfam02566 257314004381 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 257314004382 conserved gate region; other site 257314004383 ABC-ATPase subunit interface; other site 257314004384 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 257314004385 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 257314004386 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 257314004387 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314004388 Walker A/P-loop; other site 257314004389 ATP binding site [chemical binding]; other site 257314004390 Q-loop/lid; other site 257314004391 ABC transporter signature motif; other site 257314004392 Walker B; other site 257314004393 D-loop; other site 257314004394 H-loop/switch region; other site 257314004395 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 257314004396 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 257314004397 active site 257314004398 tetramer interface; other site 257314004399 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 257314004400 methionine aminopeptidase; Provisional; Region: PRK08671 257314004401 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 257314004402 active site 257314004403 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 257314004404 Predicted membrane protein [Function unknown]; Region: COG2246 257314004405 GtrA-like protein; Region: GtrA; pfam04138 257314004406 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 257314004407 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 257314004408 active site 257314004409 homodimer interface [polypeptide binding]; other site 257314004410 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 257314004411 Transposase; Region: DDE_Tnp_ISL3; pfam01610 257314004412 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 257314004413 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 257314004414 G1 box; other site 257314004415 putative GEF interaction site [polypeptide binding]; other site 257314004416 GTP/Mg2+ binding site [chemical binding]; other site 257314004417 Switch I region; other site 257314004418 G2 box; other site 257314004419 G3 box; other site 257314004420 Switch II region; other site 257314004421 G4 box; other site 257314004422 G5 box; other site 257314004423 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 257314004424 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 257314004425 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 257314004426 Transporter associated domain; Region: CorC_HlyC; pfam03471 257314004427 hypothetical protein; Provisional; Region: PRK13662 257314004428 recombination regulator RecX; Provisional; Region: recX; PRK14135 257314004429 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 257314004430 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 257314004431 S-adenosylmethionine binding site [chemical binding]; other site 257314004432 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 257314004433 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 257314004434 dimer interface [polypeptide binding]; other site 257314004435 active site 257314004436 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 257314004437 homodimer interface [polypeptide binding]; other site 257314004438 catalytic residues [active] 257314004439 NAD binding site [chemical binding]; other site 257314004440 substrate binding pocket [chemical binding]; other site 257314004441 flexible flap; other site 257314004442 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 257314004443 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 257314004444 dimer interface [polypeptide binding]; other site 257314004445 active site 257314004446 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 257314004447 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 257314004448 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 257314004449 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 257314004450 active site 257314004451 motif I; other site 257314004452 motif II; other site 257314004453 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 257314004454 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 257314004455 putative substrate translocation pore; other site 257314004456 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257314004457 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 257314004458 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 257314004459 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 257314004460 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 257314004461 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 257314004462 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 257314004463 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 257314004464 active site residue [active] 257314004465 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 257314004466 Rhomboid family; Region: Rhomboid; pfam01694 257314004467 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 257314004468 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 257314004469 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 257314004470 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 257314004471 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 257314004472 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 257314004473 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 257314004474 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 257314004475 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 257314004476 YceG-like family; Region: YceG; pfam02618 257314004477 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 257314004478 dimerization interface [polypeptide binding]; other site 257314004479 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 257314004480 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 257314004481 putative tRNA-binding site [nucleotide binding]; other site 257314004482 B3/4 domain; Region: B3_4; pfam03483 257314004483 tRNA synthetase B5 domain; Region: B5; smart00874 257314004484 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 257314004485 dimer interface [polypeptide binding]; other site 257314004486 motif 1; other site 257314004487 motif 3; other site 257314004488 motif 2; other site 257314004489 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 257314004490 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 257314004491 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 257314004492 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 257314004493 dimer interface [polypeptide binding]; other site 257314004494 motif 1; other site 257314004495 active site 257314004496 motif 2; other site 257314004497 motif 3; other site 257314004498 Predicted transcriptional regulators [Transcription]; Region: COG1733 257314004499 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 257314004500 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 257314004501 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 257314004502 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 257314004503 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 257314004504 OxaA-like protein precursor; Provisional; Region: PRK02463 257314004505 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 257314004506 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 257314004507 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 257314004508 dimerization interface [polypeptide binding]; other site 257314004509 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 257314004510 dimer interface [polypeptide binding]; other site 257314004511 phosphorylation site [posttranslational modification] 257314004512 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 257314004513 ATP binding site [chemical binding]; other site 257314004514 Mg2+ binding site [ion binding]; other site 257314004515 G-X-G motif; other site 257314004516 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 257314004517 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 257314004518 active site 257314004519 phosphorylation site [posttranslational modification] 257314004520 intermolecular recognition site; other site 257314004521 dimerization interface [polypeptide binding]; other site 257314004522 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 257314004523 DNA binding site [nucleotide binding] 257314004524 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 257314004525 hypothetical protein; Provisional; Region: PRK13670 257314004526 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 257314004527 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 257314004528 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 257314004529 Zn2+ binding site [ion binding]; other site 257314004530 Mg2+ binding site [ion binding]; other site 257314004531 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 257314004532 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 257314004533 active site 257314004534 (T/H)XGH motif; other site 257314004535 GTPase YqeH; Provisional; Region: PRK13796 257314004536 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 257314004537 GTP/Mg2+ binding site [chemical binding]; other site 257314004538 G4 box; other site 257314004539 G5 box; other site 257314004540 G1 box; other site 257314004541 Switch I region; other site 257314004542 G2 box; other site 257314004543 G3 box; other site 257314004544 Switch II region; other site 257314004545 HAD superfamily (subfamily IIIA) phosphatase, TIGR01668; Region: YqeG_hyp_ppase 257314004546 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 257314004547 active site 257314004548 motif I; other site 257314004549 motif II; other site 257314004550 adenosine deaminase; Provisional; Region: PRK09358 257314004551 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 257314004552 active site 257314004553 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 257314004554 23S rRNA binding site [nucleotide binding]; other site 257314004555 L21 binding site [polypeptide binding]; other site 257314004556 L13 binding site [polypeptide binding]; other site 257314004557 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 257314004558 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 257314004559 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 257314004560 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 257314004561 CAAX protease self-immunity; Region: Abi; pfam02517 257314004562 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 257314004563 LytTr DNA-binding domain; Region: LytTR; smart00850 257314004564 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 257314004565 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 257314004566 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 257314004567 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 257314004568 active site 257314004569 dimer interface [polypeptide binding]; other site 257314004570 motif 1; other site 257314004571 motif 2; other site 257314004572 motif 3; other site 257314004573 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 257314004574 anticodon binding site; other site 257314004575 primosomal protein DnaI; Reviewed; Region: PRK08939 257314004576 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 257314004577 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 257314004578 Walker A motif; other site 257314004579 ATP binding site [chemical binding]; other site 257314004580 Walker B motif; other site 257314004581 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 257314004582 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 257314004583 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 257314004584 ATP cone domain; Region: ATP-cone; pfam03477 257314004585 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 257314004586 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 257314004587 CoA-binding site [chemical binding]; other site 257314004588 ATP-binding [chemical binding]; other site 257314004589 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 257314004590 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 257314004591 DNA binding site [nucleotide binding] 257314004592 catalytic residue [active] 257314004593 H2TH interface [polypeptide binding]; other site 257314004594 putative catalytic residues [active] 257314004595 turnover-facilitating residue; other site 257314004596 intercalation triad [nucleotide binding]; other site 257314004597 8OG recognition residue [nucleotide binding]; other site 257314004598 putative reading head residues; other site 257314004599 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 257314004600 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 257314004601 DNA polymerase I; Provisional; Region: PRK05755 257314004602 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 257314004603 active site 257314004604 metal binding site 1 [ion binding]; metal-binding site 257314004605 putative 5' ssDNA interaction site; other site 257314004606 metal binding site 3; metal-binding site 257314004607 metal binding site 2 [ion binding]; metal-binding site 257314004608 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 257314004609 putative DNA binding site [nucleotide binding]; other site 257314004610 putative metal binding site [ion binding]; other site 257314004611 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 257314004612 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 257314004613 active site 257314004614 DNA binding site [nucleotide binding] 257314004615 catalytic site [active] 257314004616 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 257314004617 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 257314004618 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cl00021 257314004619 active site 257314004620 phosphorylation site [posttranslational modification] 257314004621 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 257314004622 active pocket/dimerization site; other site 257314004623 active site 257314004624 phosphorylation site [posttranslational modification] 257314004625 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 257314004626 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 257314004627 ligand binding site [chemical binding]; other site 257314004628 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 257314004629 Histidine kinase; Region: HisKA_3; pfam07730 257314004630 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 257314004631 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 257314004632 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 257314004633 active site 257314004634 phosphorylation site [posttranslational modification] 257314004635 intermolecular recognition site; other site 257314004636 dimerization interface [polypeptide binding]; other site 257314004637 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 257314004638 DNA binding residues [nucleotide binding] 257314004639 dimerization interface [polypeptide binding]; other site 257314004640 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 257314004641 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 257314004642 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 257314004643 intersubunit interface [polypeptide binding]; other site 257314004644 active site 257314004645 catalytic residue [active] 257314004646 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 257314004647 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257314004648 DNA-binding site [nucleotide binding]; DNA binding site 257314004649 UTRA domain; Region: UTRA; pfam07702 257314004650 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 257314004651 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 257314004652 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 257314004653 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 257314004654 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 257314004655 putative tRNA-binding site [nucleotide binding]; other site 257314004656 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 257314004657 catalytic residues [active] 257314004658 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 257314004659 S-adenosylmethionine binding site [chemical binding]; other site 257314004660 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 257314004661 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 257314004662 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 257314004663 Walker A/P-loop; other site 257314004664 ATP binding site [chemical binding]; other site 257314004665 Q-loop/lid; other site 257314004666 ABC transporter signature motif; other site 257314004667 Walker B; other site 257314004668 D-loop; other site 257314004669 H-loop/switch region; other site 257314004670 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 257314004671 HIT family signature motif; other site 257314004672 catalytic residue [active] 257314004673 YtxH-like protein; Region: YtxH; cl02079 257314004674 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 257314004675 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 257314004676 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 257314004677 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 257314004678 generic binding surface II; other site 257314004679 generic binding surface I; other site 257314004680 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 257314004681 Zn2+ binding site [ion binding]; other site 257314004682 Mg2+ binding site [ion binding]; other site 257314004683 P-loop containing region of AAA domain; Region: AAA_29; cl17516 257314004684 AAA domain; Region: AAA_23; pfam13476 257314004685 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 257314004686 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 257314004687 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 257314004688 active site 257314004689 metal binding site [ion binding]; metal-binding site 257314004690 DNA binding site [nucleotide binding] 257314004691 hypothetical protein; Provisional; Region: PRK13676 257314004692 Transglycosylase; Region: Transgly; pfam00912 257314004693 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 257314004694 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 257314004695 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 257314004696 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 257314004697 active site 257314004698 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 257314004699 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 257314004700 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 257314004701 active site 257314004702 P-loop; other site 257314004703 phosphorylation site [posttranslational modification] 257314004704 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 257314004705 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 257314004706 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 257314004707 active site 257314004708 phosphorylation site [posttranslational modification] 257314004709 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cl00163 257314004710 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 257314004711 HTH domain; Region: HTH_11; pfam08279 257314004712 PRD domain; Region: PRD; pfam00874 257314004713 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 257314004714 active site 257314004715 P-loop; other site 257314004716 phosphorylation site [posttranslational modification] 257314004717 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 257314004718 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 257314004719 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin...; Region: APH; cd05150 257314004720 Phosphotransferase enzyme family; Region: APH; pfam01636 257314004721 active site 257314004722 ATP binding site [chemical binding]; other site 257314004723 antibiotic binding site [chemical binding]; other site 257314004724 Beta-lactamase; Region: Beta-lactamase; pfam00144 257314004725 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 257314004726 Ubiquitin-like proteins; Region: UBQ; cl00155 257314004727 hydrophobic patch; other site 257314004728 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 257314004729 ligand binding site [chemical binding]; other site 257314004730 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 257314004731 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 257314004732 ligand binding site [chemical binding]; other site 257314004733 flexible hinge region; other site 257314004734 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 257314004735 non-specific DNA interactions [nucleotide binding]; other site 257314004736 DNA binding site [nucleotide binding] 257314004737 sequence specific DNA binding site [nucleotide binding]; other site 257314004738 putative cAMP binding site [chemical binding]; other site 257314004739 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 257314004740 metal-binding site [ion binding] 257314004741 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 257314004742 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 257314004743 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 257314004744 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 257314004745 TRAM domain; Region: TRAM; pfam01938 257314004746 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 257314004747 S-adenosylmethionine binding site [chemical binding]; other site 257314004748 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 257314004749 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 257314004750 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 257314004751 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 257314004752 Walker A/P-loop; other site 257314004753 ATP binding site [chemical binding]; other site 257314004754 Q-loop/lid; other site 257314004755 ABC transporter signature motif; other site 257314004756 Walker B; other site 257314004757 D-loop; other site 257314004758 H-loop/switch region; other site 257314004759 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 257314004760 Uncharacterized conserved protein [Function unknown]; Region: COG1912 257314004761 hypothetical protein; Provisional; Region: PRK13661 257314004762 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 257314004763 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 257314004764 Walker A/P-loop; other site 257314004765 ATP binding site [chemical binding]; other site 257314004766 Q-loop/lid; other site 257314004767 ABC transporter signature motif; other site 257314004768 Walker B; other site 257314004769 D-loop; other site 257314004770 H-loop/switch region; other site 257314004771 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 257314004772 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 257314004773 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 257314004774 Walker A/P-loop; other site 257314004775 ATP binding site [chemical binding]; other site 257314004776 Q-loop/lid; other site 257314004777 ABC transporter signature motif; other site 257314004778 Walker B; other site 257314004779 D-loop; other site 257314004780 H-loop/switch region; other site 257314004781 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 257314004782 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 257314004783 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 257314004784 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 257314004785 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 257314004786 Ligand binding site; other site 257314004787 metal-binding site 257314004788 glycosyltransferase, SP_1767 family; Region: glyco_access_1; TIGR03728 257314004789 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 257314004790 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 257314004791 Ligand binding site; other site 257314004792 metal-binding site 257314004793 glycosyltransferase, SP_1767 family; Region: glyco_access_1; TIGR03728 257314004794 glycosyltransferase, SP_1767 family; Region: glyco_access_1; TIGR03728 257314004795 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 257314004796 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 257314004797 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 257314004798 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 257314004799 active site 257314004800 motif I; other site 257314004801 motif II; other site 257314004802 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 257314004803 putative lipid kinase; Reviewed; Region: PRK13337 257314004804 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 257314004805 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 257314004806 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 257314004807 GatB domain; Region: GatB_Yqey; smart00845 257314004808 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 257314004809 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 257314004810 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 257314004811 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 257314004812 putative dimer interface [polypeptide binding]; other site 257314004813 CamS sex pheromone cAM373 precursor; Region: CamS; pfam07537 257314004814 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 257314004815 putative dimer interface [polypeptide binding]; other site 257314004816 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 257314004817 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 257314004818 nucleotide binding pocket [chemical binding]; other site 257314004819 K-X-D-G motif; other site 257314004820 catalytic site [active] 257314004821 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 257314004822 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 257314004823 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 257314004824 Dimer interface [polypeptide binding]; other site 257314004825 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 257314004826 Part of AAA domain; Region: AAA_19; pfam13245 257314004827 Family description; Region: UvrD_C_2; pfam13538 257314004828 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 257314004829 Predicted membrane protein [Function unknown]; Region: COG4684 257314004830 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 257314004831 hypothetical protein; Provisional; Region: PRK04351 257314004832 SprT homologues; Region: SprT; cl01182 257314004833 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 257314004834 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 257314004835 Helix-turn-helix domain; Region: HTH_38; pfam13936 257314004836 Integrase core domain; Region: rve; pfam00665 257314004837 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 257314004838 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 257314004839 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 257314004840 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 257314004841 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 257314004842 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 257314004843 non-specific DNA binding site [nucleotide binding]; other site 257314004844 salt bridge; other site 257314004845 sequence-specific DNA binding site [nucleotide binding]; other site 257314004846 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 257314004847 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 257314004848 Walker A/P-loop; other site 257314004849 ATP binding site [chemical binding]; other site 257314004850 Q-loop/lid; other site 257314004851 ABC transporter signature motif; other site 257314004852 Walker B; other site 257314004853 D-loop; other site 257314004854 H-loop/switch region; other site 257314004855 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 257314004856 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 257314004857 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 257314004858 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 257314004859 Soluble P-type ATPase [General function prediction only]; Region: COG4087 257314004860 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 257314004861 stage V sporulation protein K; Region: spore_V_K; TIGR02881 257314004862 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 257314004863 Walker A motif; other site 257314004864 ATP binding site [chemical binding]; other site 257314004865 Walker B motif; other site 257314004866 arginine finger; other site 257314004867 NAD synthetase; Reviewed; Region: nadE; PRK00768 257314004868 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 257314004869 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 257314004870 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 257314004871 active site 257314004872 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 257314004873 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 257314004874 active site 257314004875 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257314004876 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 257314004877 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 257314004878 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 257314004879 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 257314004880 active site 257314004881 nucleotide binding site [chemical binding]; other site 257314004882 HIGH motif; other site 257314004883 KMSKS motif; other site 257314004884 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 257314004885 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257314004886 DNA-binding site [nucleotide binding]; DNA binding site 257314004887 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 257314004888 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 257314004889 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 257314004890 active site residue [active] 257314004891 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 257314004892 tetramer (dimer of dimers) interface [polypeptide binding]; other site 257314004893 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 257314004894 NAD binding site [chemical binding]; other site 257314004895 dimer interface [polypeptide binding]; other site 257314004896 substrate binding site [chemical binding]; other site 257314004897 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 257314004898 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 257314004899 Predicted membrane protein [Function unknown]; Region: COG4905 257314004900 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 257314004901 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 257314004902 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257314004903 Coenzyme A binding pocket [chemical binding]; other site 257314004904 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 257314004905 active site 257314004906 DNA binding site [nucleotide binding] 257314004907 Int/Topo IB signature motif; other site 257314004908 Replication initiation factor; Region: Rep_trans; pfam02486 257314004909 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 257314004910 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 257314004911 Walker A motif; other site 257314004912 ATP binding site [chemical binding]; other site 257314004913 Walker B motif; other site 257314004914 arginine finger; other site 257314004915 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 257314004916 non-specific DNA binding site [nucleotide binding]; other site 257314004917 salt bridge; other site 257314004918 sequence-specific DNA binding site [nucleotide binding]; other site 257314004919 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 257314004920 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 257314004921 active site 257314004922 catalytic tetrad [active] 257314004923 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 257314004924 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 257314004925 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 257314004926 TIGR02452 family protein; Region: TIGR02452 257314004927 Uncharacterized protein conserved in bacteria (DUF2263); Region: DUF2263; pfam10021 257314004928 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 257314004929 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 257314004930 NAD binding site [chemical binding]; other site 257314004931 homodimer interface [polypeptide binding]; other site 257314004932 active site 257314004933 substrate binding site [chemical binding]; other site 257314004934 CRISPR-associated helicase Cas3, subtype CYANO; Region: cas3_cyano; TIGR03158 257314004935 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 257314004936 ATP binding site [chemical binding]; other site 257314004937 putative Mg++ binding site [ion binding]; other site 257314004938 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 257314004939 nucleotide binding region [chemical binding]; other site 257314004940 ATP-binding site [chemical binding]; other site 257314004941 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 257314004942 AAA ATPase domain; Region: AAA_16; pfam13191 257314004943 potential frameshift: common BLAST hit: gi|315037707|ref|YP_004031275.1| Carboxymuconolactone decarboxylase 257314004944 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 257314004945 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 257314004946 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 257314004947 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 257314004948 putative catalytic cysteine [active] 257314004949 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 257314004950 putative active site [active] 257314004951 metal binding site [ion binding]; metal-binding site 257314004952 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 257314004953 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 257314004954 Sulfatase; Region: Sulfatase; pfam00884 257314004955 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 257314004956 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257314004957 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 257314004958 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257314004959 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 257314004960 putative ADP-binding pocket [chemical binding]; other site 257314004961 seryl-tRNA synthetase; Provisional; Region: PRK05431 257314004962 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 257314004963 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 257314004964 dimer interface [polypeptide binding]; other site 257314004965 active site 257314004966 motif 1; other site 257314004967 motif 2; other site 257314004968 motif 3; other site 257314004969 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 257314004970 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 257314004971 Uncharacterized conserved protein [Function unknown]; Region: COG0398 257314004972 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 257314004973 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 257314004974 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 257314004975 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 257314004976 salt bridge; other site 257314004977 non-specific DNA binding site [nucleotide binding]; other site 257314004978 sequence-specific DNA binding site [nucleotide binding]; other site 257314004979 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 257314004980 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 257314004981 NAD(P) binding site [chemical binding]; other site 257314004982 catalytic residues [active] 257314004983 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 257314004984 Double zinc ribbon; Region: DZR; pfam12773 257314004985 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 257314004986 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 257314004987 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 257314004988 active site 257314004989 motif I; other site 257314004990 motif II; other site 257314004991 MMPL family; Region: MMPL; pfam03176 257314004992 Predicted membrane protein [Function unknown]; Region: COG1511 257314004993 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 257314004994 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 257314004995 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257314004996 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257314004997 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 257314004998 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 257314004999 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 257314005000 nucleotide binding site [chemical binding]; other site 257314005001 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257314005002 Coenzyme A binding pocket [chemical binding]; other site 257314005003 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257314005004 Coenzyme A binding pocket [chemical binding]; other site 257314005005 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 257314005006 MarR family; Region: MarR; pfam01047 257314005007 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 257314005008 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 257314005009 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 257314005010 potential frameshift: common BLAST hit: gi|116630200|ref|YP_815372.1| metallo-beta-lactamase superfamily hydrolase 257314005011 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 257314005012 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 257314005013 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 257314005014 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 257314005015 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 257314005016 dimer interface [polypeptide binding]; other site 257314005017 conserved gate region; other site 257314005018 putative PBP binding loops; other site 257314005019 ABC-ATPase subunit interface; other site 257314005020 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 257314005021 dimer interface [polypeptide binding]; other site 257314005022 conserved gate region; other site 257314005023 putative PBP binding loops; other site 257314005024 ABC-ATPase subunit interface; other site 257314005025 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 257314005026 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 257314005027 Walker A/P-loop; other site 257314005028 ATP binding site [chemical binding]; other site 257314005029 Q-loop/lid; other site 257314005030 ABC transporter signature motif; other site 257314005031 Walker B; other site 257314005032 D-loop; other site 257314005033 H-loop/switch region; other site 257314005034 TOBE domain; Region: TOBE_2; pfam08402 257314005035 Peptidase family C69; Region: Peptidase_C69; pfam03577 257314005036 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 257314005037 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 257314005038 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 257314005039 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 257314005040 active site 257314005041 catalytic tetrad [active] 257314005042 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 257314005043 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 257314005044 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 257314005045 active site 257314005046 catalytic site [active] 257314005047 substrate binding site [chemical binding]; other site 257314005048 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; cl00038 257314005049 Predicted membrane protein [Function unknown]; Region: COG2323 257314005050 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 257314005051 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 257314005052 peptidase T; Region: peptidase-T; TIGR01882 257314005053 metal binding site [ion binding]; metal-binding site 257314005054 dimer interface [polypeptide binding]; other site 257314005055 PAS domain; Region: PAS_10; pfam13596 257314005056 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 257314005057 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 257314005058 Helix-turn-helix domain; Region: HTH_38; pfam13936 257314005059 Integrase core domain; Region: rve; pfam00665 257314005060 MucBP domain; Region: MucBP; pfam06458 257314005061 MucBP domain; Region: MucBP; pfam06458 257314005062 MucBP domain; Region: MucBP; pfam06458 257314005063 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 257314005064 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 257314005065 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 257314005066 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 257314005067 HPr interaction site; other site 257314005068 glycerol kinase (GK) interaction site [polypeptide binding]; other site 257314005069 active site 257314005070 phosphorylation site [posttranslational modification] 257314005071 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 257314005072 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 257314005073 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 257314005074 putative active site [active] 257314005075 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 257314005076 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 257314005077 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 257314005078 active site turn [active] 257314005079 phosphorylation site [posttranslational modification] 257314005080 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 257314005081 active site turn [active] 257314005082 phosphorylation site [posttranslational modification] 257314005083 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 257314005084 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 257314005085 NAD(P) binding site [chemical binding]; other site 257314005086 LDH/MDH dimer interface [polypeptide binding]; other site 257314005087 substrate binding site [chemical binding]; other site 257314005088 PAS domain; Region: PAS_10; pfam13596 257314005089 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 257314005090 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 257314005091 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 257314005092 substrate binding site [chemical binding]; other site 257314005093 THF binding site; other site 257314005094 zinc-binding site [ion binding]; other site 257314005095 S-ribosylhomocysteinase; Provisional; Region: PRK02260 257314005096 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 257314005097 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 257314005098 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 257314005099 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 257314005100 active pocket/dimerization site; other site 257314005101 active site 257314005102 phosphorylation site [posttranslational modification] 257314005103 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 257314005104 active site 257314005105 phosphorylation site [posttranslational modification] 257314005106 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 257314005107 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 257314005108 peptide binding site [polypeptide binding]; other site 257314005109 EamA-like transporter family; Region: EamA; pfam00892 257314005110 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 257314005111 EamA-like transporter family; Region: EamA; pfam00892 257314005112 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cl00164 257314005113 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 257314005114 CAT RNA binding domain; Region: CAT_RBD; smart01061 257314005115 PRD domain; Region: PRD; pfam00874 257314005116 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 257314005117 Helix-turn-helix domain; Region: HTH_38; pfam13936 257314005118 Integrase core domain; Region: rve; pfam00665 257314005119 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 257314005120 Rib/alpha-like repeat; Region: Rib; pfam08428 257314005121 Rib/alpha-like repeat; Region: Rib; pfam08428 257314005122 Rib/alpha-like repeat; Region: Rib; pfam08428 257314005123 Rib/alpha-like repeat; Region: Rib; pfam08428 257314005124 Rib/alpha-like repeat; Region: Rib; pfam08428 257314005125 Rib/alpha-like repeat; Region: Rib; pfam08428 257314005126 Rib/alpha-like repeat; Region: Rib; pfam08428 257314005127 Rib/alpha-like repeat; Region: Rib; pfam08428 257314005128 Rib/alpha-like repeat; Region: Rib; pfam08428 257314005129 elongation factor P; Validated; Region: PRK00529 257314005130 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 257314005131 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 257314005132 RNA binding site [nucleotide binding]; other site 257314005133 Elongation factor P, C-terminal; Region: Elong-fact-P_C; pfam09285 257314005134 RNA binding site [nucleotide binding]; other site 257314005135 pantothenate kinase; Provisional; Region: PRK05439 257314005136 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 257314005137 ATP-binding site [chemical binding]; other site 257314005138 CoA-binding site [chemical binding]; other site 257314005139 Mg2+-binding site [ion binding]; other site 257314005140 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 257314005141 active site 257314005142 catalytic triad [active] 257314005143 oxyanion hole [active] 257314005144 A sub-family of peptidase family C39. 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...; Region: Peptidase_C39A; cd02549 257314005145 putative active site [active] 257314005146 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 257314005147 Part of AAA domain; Region: AAA_19; pfam13245 257314005148 Family description; Region: UvrD_C_2; pfam13538 257314005149 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 257314005150 active site 257314005151 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 257314005152 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 257314005153 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 257314005154 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 257314005155 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 257314005156 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 257314005157 motif II; other site 257314005158 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 257314005159 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 257314005160 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 257314005161 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 257314005162 putative active site [active] 257314005163 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 257314005164 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 257314005165 putative active site cavity [active] 257314005166 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 257314005167 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 257314005168 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 257314005169 active site turn [active] 257314005170 phosphorylation site [posttranslational modification] 257314005171 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 257314005172 HPr interaction site; other site 257314005173 glycerol kinase (GK) interaction site [polypeptide binding]; other site 257314005174 active site 257314005175 phosphorylation site [posttranslational modification] 257314005176 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 257314005177 active site 257314005178 putative catalytic site [active] 257314005179 DNA binding site [nucleotide binding] 257314005180 putative phosphate binding site [ion binding]; other site 257314005181 metal binding site A [ion binding]; metal-binding site 257314005182 AP binding site [nucleotide binding]; other site 257314005183 metal binding site B [ion binding]; metal-binding site 257314005184 protein-export membrane protein SecD; Region: secD; TIGR01129 257314005185 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 257314005186 catalytic core [active] 257314005187 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 257314005188 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 257314005189 Walker A/P-loop; other site 257314005190 ATP binding site [chemical binding]; other site 257314005191 Q-loop/lid; other site 257314005192 ABC transporter signature motif; other site 257314005193 Walker B; other site 257314005194 D-loop; other site 257314005195 H-loop/switch region; other site 257314005196 inner membrane transporter YjeM; Provisional; Region: PRK15238 257314005197 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314005198 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 257314005199 Walker A/P-loop; other site 257314005200 ATP binding site [chemical binding]; other site 257314005201 Q-loop/lid; other site 257314005202 ABC transporter signature motif; other site 257314005203 Walker B; other site 257314005204 D-loop; other site 257314005205 H-loop/switch region; other site 257314005206 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 257314005207 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 257314005208 HflX GTPase family; Region: HflX; cd01878 257314005209 G1 box; other site 257314005210 GTP/Mg2+ binding site [chemical binding]; other site 257314005211 Switch I region; other site 257314005212 G2 box; other site 257314005213 G3 box; other site 257314005214 Switch II region; other site 257314005215 G4 box; other site 257314005216 G5 box; other site 257314005217 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 257314005218 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 257314005219 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 257314005220 NlpC/P60 family; Region: NLPC_P60; pfam00877 257314005221 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 257314005222 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 257314005223 catalytic site [active] 257314005224 G-X2-G-X-G-K; other site 257314005225 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 257314005226 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 257314005227 dimer interface [polypeptide binding]; other site 257314005228 putative radical transfer pathway; other site 257314005229 diiron center [ion binding]; other site 257314005230 tyrosyl radical; other site 257314005231 PemK-like protein; Region: PemK; pfam02452 257314005232 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 257314005233 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 257314005234 Uncharacterized conserved protein [Function unknown]; Region: COG2966 257314005235 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 257314005236 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 257314005237 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257314005238 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314005239 Walker A/P-loop; other site 257314005240 ATP binding site [chemical binding]; other site 257314005241 Q-loop/lid; other site 257314005242 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257314005243 ABC transporter signature motif; other site 257314005244 Walker B; other site 257314005245 D-loop; other site 257314005246 ABC transporter; Region: ABC_tran_2; pfam12848 257314005247 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257314005248 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 257314005249 oligoendopeptidase F; Region: pepF; TIGR00181 257314005250 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 257314005251 active site 257314005252 Zn binding site [ion binding]; other site 257314005253 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 257314005254 L-lactate permease; Region: Lactate_perm; cl00701 257314005255 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 257314005256 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 257314005257 ABC-ATPase subunit interface; other site 257314005258 dimer interface [polypeptide binding]; other site 257314005259 putative PBP binding regions; other site 257314005260 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 257314005261 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 257314005262 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 257314005263 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 257314005264 intersubunit interface [polypeptide binding]; other site 257314005265 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 257314005266 dimerization interface [polypeptide binding]; other site 257314005267 putative DNA binding site [nucleotide binding]; other site 257314005268 putative Zn2+ binding site [ion binding]; other site 257314005269 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 257314005270 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 257314005271 active site 257314005272 motif I; other site 257314005273 motif II; other site 257314005274 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 257314005275 MucBP domain; Region: MucBP; pfam06458 257314005276 MucBP domain; Region: MucBP; pfam06458 257314005277 MucBP domain; Region: MucBP; pfam06458 257314005278 MucBP domain; Region: MucBP; pfam06458 257314005279 MucBP domain; Region: MucBP; pfam06458 257314005280 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 257314005281 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 257314005282 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 257314005283 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 257314005284 active site 257314005285 phosphorylation site [posttranslational modification] 257314005286 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 257314005287 active site 257314005288 P-loop; other site 257314005289 phosphorylation site [posttranslational modification] 257314005290 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 257314005291 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 257314005292 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 257314005293 putative substrate binding site [chemical binding]; other site 257314005294 putative ATP binding site [chemical binding]; other site 257314005295 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 257314005296 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 257314005297 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 257314005298 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 257314005299 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 257314005300 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 257314005301 trimer interface [polypeptide binding]; other site 257314005302 active site 257314005303 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 257314005304 catalytic site [active] 257314005305 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 257314005306 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 257314005307 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314005308 Walker A/P-loop; other site 257314005309 ATP binding site [chemical binding]; other site 257314005310 Q-loop/lid; other site 257314005311 ABC transporter signature motif; other site 257314005312 Walker B; other site 257314005313 D-loop; other site 257314005314 H-loop/switch region; other site 257314005315 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 257314005316 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 257314005317 aspartate racemase; Region: asp_race; TIGR00035 257314005318 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 257314005319 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 257314005320 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 257314005321 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 257314005322 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 257314005323 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 257314005324 dimer interface [polypeptide binding]; other site 257314005325 phosphorylation site [posttranslational modification] 257314005326 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 257314005327 ATP binding site [chemical binding]; other site 257314005328 Mg2+ binding site [ion binding]; other site 257314005329 G-X-G motif; other site 257314005330 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 257314005331 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 257314005332 active site 257314005333 phosphorylation site [posttranslational modification] 257314005334 intermolecular recognition site; other site 257314005335 dimerization interface [polypeptide binding]; other site 257314005336 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 257314005337 DNA binding site [nucleotide binding] 257314005338 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257314005339 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 257314005340 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 257314005341 Walker A/P-loop; other site 257314005342 ATP binding site [chemical binding]; other site 257314005343 Q-loop/lid; other site 257314005344 ABC transporter signature motif; other site 257314005345 Walker B; other site 257314005346 D-loop; other site 257314005347 H-loop/switch region; other site 257314005348 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 257314005349 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257314005350 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314005351 Walker A/P-loop; other site 257314005352 ATP binding site [chemical binding]; other site 257314005353 Q-loop/lid; other site 257314005354 ABC transporter signature motif; other site 257314005355 Walker B; other site 257314005356 D-loop; other site 257314005357 H-loop/switch region; other site 257314005358 Protein of unknown function (DUF1129); Region: DUF1129; pfam06570 257314005359 GTP-binding protein YchF; Reviewed; Region: PRK09601 257314005360 YchF GTPase; Region: YchF; cd01900 257314005361 G1 box; other site 257314005362 GTP/Mg2+ binding site [chemical binding]; other site 257314005363 Switch I region; other site 257314005364 G2 box; other site 257314005365 Switch II region; other site 257314005366 G3 box; other site 257314005367 G4 box; other site 257314005368 G5 box; other site 257314005369 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 257314005370 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 257314005371 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 257314005372 ParB-like nuclease domain; Region: ParB; smart00470 257314005373 KorB domain; Region: KorB; pfam08535 257314005374 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 257314005375 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 257314005376 P-loop; other site 257314005377 Magnesium ion binding site [ion binding]; other site 257314005378 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 257314005379 Magnesium ion binding site [ion binding]; other site 257314005380 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 257314005381 ParB-like nuclease domain; Region: ParB; smart00470 257314005382 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 257314005383 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 257314005384 S-adenosylmethionine binding site [chemical binding]; other site 257314005385 Colicin V production protein; Region: Colicin_V; pfam02674 257314005386 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 257314005387 ApbE family; Region: ApbE; pfam02424 257314005388 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 257314005389 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 257314005390 Uncharacterized conserved protein [Function unknown]; Region: COG3589 257314005391 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 257314005392 Predicted flavoprotein [General function prediction only]; Region: COG0431 257314005393 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 257314005394 Predicted flavoprotein [General function prediction only]; Region: COG0431 257314005395 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 257314005396 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257314005397 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257314005398 WHG domain; Region: WHG; pfam13305 257314005399 Peptidase family C69; Region: Peptidase_C69; pfam03577 257314005400 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 257314005401 beta-galactosidase; Region: BGL; TIGR03356 257314005402 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 257314005403 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 257314005404 active site turn [active] 257314005405 phosphorylation site [posttranslational modification] 257314005406 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 257314005407 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 257314005408 HPr interaction site; other site 257314005409 glycerol kinase (GK) interaction site [polypeptide binding]; other site 257314005410 active site 257314005411 phosphorylation site [posttranslational modification] 257314005412 transcriptional antiterminator BglG; Provisional; Region: PRK09772 257314005413 CAT RNA binding domain; Region: CAT_RBD; smart01061 257314005414 PRD domain; Region: PRD; pfam00874 257314005415 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 257314005416 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 257314005417 Walker A/P-loop; other site 257314005418 ATP binding site [chemical binding]; other site 257314005419 Q-loop/lid; other site 257314005420 ABC transporter signature motif; other site 257314005421 Walker B; other site 257314005422 D-loop; other site 257314005423 H-loop/switch region; other site 257314005424 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 257314005425 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 257314005426 FtsX-like permease family; Region: FtsX; pfam02687 257314005427 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257314005428 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 257314005429 catalytic core [active] 257314005430 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 257314005431 catalytic core [active] 257314005432 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 257314005433 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 257314005434 catalytic site [active] 257314005435 hypothetical protein; Validated; Region: PRK02101 257314005436 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; cl04270 257314005437 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 257314005438 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 257314005439 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 257314005440 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 257314005441 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 257314005442 putative active site [active] 257314005443 catalytic site [active] 257314005444 putative metal binding site [ion binding]; other site 257314005445 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 257314005446 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 257314005447 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 257314005448 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 257314005449 putative active site [active] 257314005450 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 257314005451 nucleotide binding site/active site [active] 257314005452 HIT family signature motif; other site 257314005453 catalytic residue [active] 257314005454 Class I aldolases; Region: Aldolase_Class_I; cl17187 257314005455 potential frameshift: common BLAST hit: gi|268320166|ref|YP_003293822.1| major facilitator superfamily permease 257314005456 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 257314005457 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 257314005458 putative substrate translocation pore; other site 257314005459 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 257314005460 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 257314005461 catalytic triad [active] 257314005462 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 257314005463 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257314005464 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 257314005465 Walker A/P-loop; other site 257314005466 ATP binding site [chemical binding]; other site 257314005467 Q-loop/lid; other site 257314005468 ABC transporter signature motif; other site 257314005469 Walker B; other site 257314005470 D-loop; other site 257314005471 H-loop/switch region; other site 257314005472 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 257314005473 putative ADP-ribose binding site [chemical binding]; other site 257314005474 putative active site [active] 257314005475 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 257314005476 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 257314005477 active site turn [active] 257314005478 phosphorylation site [posttranslational modification] 257314005479 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 257314005480 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 257314005481 HPr interaction site; other site 257314005482 glycerol kinase (GK) interaction site [polypeptide binding]; other site 257314005483 active site 257314005484 phosphorylation site [posttranslational modification] 257314005485 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 257314005486 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 257314005487 substrate binding [chemical binding]; other site 257314005488 active site 257314005489 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 257314005490 Transcriptional regulators [Transcription]; Region: PurR; COG1609 257314005491 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 257314005492 DNA binding site [nucleotide binding] 257314005493 domain linker motif; other site 257314005494 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 257314005495 dimerization interface [polypeptide binding]; other site 257314005496 ligand binding site [chemical binding]; other site 257314005497 sodium binding site [ion binding]; other site 257314005498 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 257314005499 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 257314005500 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 257314005501 substrate binding site [chemical binding]; other site 257314005502 dimer interface [polypeptide binding]; other site 257314005503 ATP binding site [chemical binding]; other site 257314005504 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 257314005505 catalytic triad [active] 257314005506 amino acid transporter; Region: 2A0306; TIGR00909 257314005507 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 257314005508 EamA-like transporter family; Region: EamA; pfam00892 257314005509 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 257314005510 EamA-like transporter family; Region: EamA; pfam00892 257314005511 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 257314005512 dimer interface [polypeptide binding]; other site 257314005513 active site 257314005514 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 257314005515 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 257314005516 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 257314005517 catalytic triad [active] 257314005518 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 257314005519 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 257314005520 Domain of unknown function (DUF956); Region: DUF956; pfam06115 257314005521 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 257314005522 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 257314005523 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 257314005524 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 257314005525 active pocket/dimerization site; other site 257314005526 active site 257314005527 phosphorylation site [posttranslational modification] 257314005528 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 257314005529 active site 257314005530 phosphorylation site [posttranslational modification] 257314005531 amino acid transporter; Region: 2A0306; TIGR00909 257314005532 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 257314005533 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 257314005534 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 257314005535 Walker A motif; other site 257314005536 ATP binding site [chemical binding]; other site 257314005537 Walker B motif; other site 257314005538 arginine finger; other site 257314005539 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 257314005540 Walker A motif; other site 257314005541 ATP binding site [chemical binding]; other site 257314005542 Walker B motif; other site 257314005543 arginine finger; other site 257314005544 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 257314005545 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 257314005546 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 257314005547 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 257314005548 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257314005549 putative substrate translocation pore; other site 257314005550 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 257314005551 Beta-lactamase; Region: Beta-lactamase; pfam00144 257314005552 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 257314005553 DltD N-terminal region; Region: DltD_N; pfam04915 257314005554 DltD central region; Region: DltD_M; pfam04918 257314005555 DltD C-terminal region; Region: DltD_C; pfam04914 257314005556 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 257314005557 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 257314005558 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 257314005559 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 257314005560 acyl-activating enzyme (AAE) consensus motif; other site 257314005561 AMP binding site [chemical binding]; other site 257314005562 FOG: CBS domain [General function prediction only]; Region: COG0517 257314005563 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 257314005564 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 257314005565 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 257314005566 Soluble P-type ATPase [General function prediction only]; Region: COG4087 257314005567 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 257314005568 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 257314005569 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 257314005570 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 257314005571 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 257314005572 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257314005573 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 257314005574 Walker A/P-loop; other site 257314005575 ATP binding site [chemical binding]; other site 257314005576 Q-loop/lid; other site 257314005577 ABC transporter signature motif; other site 257314005578 Walker B; other site 257314005579 D-loop; other site 257314005580 H-loop/switch region; other site 257314005581 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 257314005582 non-specific DNA binding site [nucleotide binding]; other site 257314005583 salt bridge; other site 257314005584 sequence-specific DNA binding site [nucleotide binding]; other site 257314005585 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 257314005586 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 257314005587 putative substrate binding pocket [chemical binding]; other site 257314005588 AC domain interface; other site 257314005589 catalytic triad [active] 257314005590 AB domain interface; other site 257314005591 interchain disulfide; other site 257314005592 Predicted membrane protein [Function unknown]; Region: COG3817 257314005593 Protein of unknown function (DUF979); Region: DUF979; pfam06166 257314005594 Protein of unknown function (DUF969); Region: DUF969; pfam06149 257314005595 Protein of unknown function (DUF805); Region: DUF805; pfam05656 257314005596 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 257314005597 PTS system sugar-specific permease component; Region: EIIC-GAT; pfam03611 257314005598 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 257314005599 CAAX protease self-immunity; Region: Abi; pfam02517 257314005600 Uncharacterized conserved protein [Function unknown]; Region: COG1434 257314005601 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 257314005602 putative active site [active] 257314005603 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 257314005604 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 257314005605 Walker A/P-loop; other site 257314005606 ATP binding site [chemical binding]; other site 257314005607 Q-loop/lid; other site 257314005608 ABC transporter signature motif; other site 257314005609 Walker B; other site 257314005610 D-loop; other site 257314005611 H-loop/switch region; other site 257314005612 FtsX-like permease family; Region: FtsX; pfam02687 257314005613 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 257314005614 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 257314005615 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 257314005616 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 257314005617 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257314005618 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314005619 Walker A/P-loop; other site 257314005620 ATP binding site [chemical binding]; other site 257314005621 Q-loop/lid; other site 257314005622 ABC transporter signature motif; other site 257314005623 Walker B; other site 257314005624 D-loop; other site 257314005625 H-loop/switch region; other site 257314005626 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 257314005627 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 257314005628 Walker A/P-loop; other site 257314005629 ATP binding site [chemical binding]; other site 257314005630 Q-loop/lid; other site 257314005631 ABC transporter signature motif; other site 257314005632 Walker B; other site 257314005633 D-loop; other site 257314005634 H-loop/switch region; other site 257314005635 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 257314005636 UbiA prenyltransferase family; Region: UbiA; pfam01040 257314005637 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 257314005638 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 257314005639 substrate binding pocket [chemical binding]; other site 257314005640 membrane-bound complex binding site; other site 257314005641 hinge residues; other site 257314005642 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 257314005643 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 257314005644 ligand binding site [chemical binding]; other site 257314005645 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 257314005646 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 257314005647 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 257314005648 putative active site [active] 257314005649 Uncharacterized conserved protein [Function unknown]; Region: COG3589 257314005650 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 257314005651 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 257314005652 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 257314005653 putative active site [active] 257314005654 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 257314005655 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 257314005656 active site turn [active] 257314005657 phosphorylation site [posttranslational modification] 257314005658 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 257314005659 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 257314005660 HPr interaction site; other site 257314005661 glycerol kinase (GK) interaction site [polypeptide binding]; other site 257314005662 active site 257314005663 phosphorylation site [posttranslational modification] 257314005664 hypothetical protein; Provisional; Region: PRK10621 257314005665 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 257314005666 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 257314005667 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 257314005668 active site 257314005669 catalytic tetrad [active] 257314005670 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 257314005671 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 257314005672 active site 257314005673 trimer interface [polypeptide binding]; other site 257314005674 allosteric site; other site 257314005675 active site lid [active] 257314005676 hexamer (dimer of trimers) interface [polypeptide binding]; other site 257314005677 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 257314005678 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 257314005679 Substrate-binding site [chemical binding]; other site 257314005680 Substrate specificity [chemical binding]; other site 257314005681 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 257314005682 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 257314005683 Substrate-binding site [chemical binding]; other site 257314005684 Substrate specificity [chemical binding]; other site 257314005685 L-Lactate oxidase (LOX) FMN-binding domain. LOX is a member of the family of FMN-containing alpha-hydroxyacid oxidases and catalyzes the oxidation of l-lactate using molecular oxygen to generate pyruvate and H2O2. This family occurs in both prokaryotes...; Region: LOX_like_FMN; cd04737 257314005686 teramer interface [polypeptide binding]; other site 257314005687 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 257314005688 active site 257314005689 FMN binding site [chemical binding]; other site 257314005690 catalytic residues [active] 257314005691 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 257314005692 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 257314005693 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 257314005694 DNA binding residues [nucleotide binding] 257314005695 dimer interface [polypeptide binding]; other site 257314005696 putative Zn-ribbon RNA-binding protein; Provisional; Region: PRK14890 257314005697 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 257314005698 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 257314005699 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 257314005700 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 257314005701 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 257314005702 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 257314005703 non-specific DNA binding site [nucleotide binding]; other site 257314005704 salt bridge; other site 257314005705 sequence-specific DNA binding site [nucleotide binding]; other site 257314005706 Protein of unknown function (DUF3955); Region: DUF3955; pfam13127 257314005707 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 257314005708 active site 257314005709 catalytic residues [active] 257314005710 metal binding site [ion binding]; metal-binding site 257314005711 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 257314005712 Penicillinase repressor; Region: Pencillinase_R; pfam03965 257314005713 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 257314005714 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 257314005715 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 257314005716 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 257314005717 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 257314005718 motif II; other site 257314005719 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 257314005720 MucBP domain; Region: MucBP; pfam06458 257314005721 MucBP domain; Region: MucBP; pfam06458 257314005722 MucBP domain; Region: MucBP; pfam06458 257314005723 MucBP domain; Region: MucBP; pfam06458 257314005724 MucBP domain; Region: MucBP; pfam06458 257314005725 MucBP domain; Region: MucBP; pfam06458 257314005726 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 257314005727 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 257314005728 putative active site [active] 257314005729 catalytic triad [active] 257314005730 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 257314005731 PA/protease or protease-like domain interface [polypeptide binding]; other site 257314005732 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 257314005733 catalytic residues [active] 257314005734 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 257314005735 Uncharacterized archaeal coiled-coil protein [Function unknown]; Region: COG1340 257314005736 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 257314005737 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 257314005738 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 257314005739 Amino acid permease; Region: AA_permease_2; pfam13520 257314005740 putative ornithine decarboxylase; Region: lacto_ODC_hypo; TIGR04318 257314005741 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 257314005742 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 257314005743 catalytic residue [active] 257314005744 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 257314005745 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 257314005746 Aluminium resistance protein; Region: Alum_res; pfam06838 257314005747 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 257314005748 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257314005749 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 257314005750 Coenzyme A binding pocket [chemical binding]; other site 257314005751 benzoate transport; Region: 2A0115; TIGR00895 257314005752 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 257314005753 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 257314005754 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257314005755 Walker A/P-loop; other site 257314005756 ATP binding site [chemical binding]; other site 257314005757 Q-loop/lid; other site 257314005758 ABC transporter signature motif; other site 257314005759 Walker B; other site 257314005760 D-loop; other site 257314005761 H-loop/switch region; other site 257314005762 MutS domain III; Region: MutS_III; pfam05192 257314005763 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 257314005764 Walker A/P-loop; other site 257314005765 ATP binding site [chemical binding]; other site 257314005766 Q-loop/lid; other site 257314005767 ABC transporter signature motif; other site 257314005768 Walker B; other site 257314005769 D-loop; other site 257314005770 H-loop/switch region; other site 257314005771 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 257314005772 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 257314005773 Cl- selectivity filter; other site 257314005774 Cl- binding residues [ion binding]; other site 257314005775 pore gating glutamate residue; other site 257314005776 dimer interface [polypeptide binding]; other site 257314005777 H+/Cl- coupling transport residue; other site 257314005778 TrkA-C domain; Region: TrkA_C; pfam02080 257314005779 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 257314005780 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 257314005781 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 257314005782 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 257314005783 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 257314005784 PYR/PP interface [polypeptide binding]; other site 257314005785 dimer interface [polypeptide binding]; other site 257314005786 tetramer interface [polypeptide binding]; other site 257314005787 TPP binding site [chemical binding]; other site 257314005788 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 257314005789 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 257314005790 TPP-binding site [chemical binding]; other site 257314005791 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 257314005792 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 257314005793 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 257314005794 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 257314005795 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 257314005796 trmE is a tRNA modification GTPase; Region: trmE; cd04164 257314005797 G1 box; other site 257314005798 GTP/Mg2+ binding site [chemical binding]; other site 257314005799 Switch I region; other site 257314005800 G2 box; other site 257314005801 Switch II region; other site 257314005802 G3 box; other site 257314005803 G4 box; other site 257314005804 G5 box; other site 257314005805 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 257314005806 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 257314005807 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 257314005808 ribonuclease P; Reviewed; Region: rnpA; PRK00499