-- dump date 20140619_123756 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1408186000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1408186000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1408186000003 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 1408186000004 Walker A motif; other site 1408186000005 ATP binding site [chemical binding]; other site 1408186000006 Walker B motif; other site 1408186000007 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 1408186000008 arginine finger; other site 1408186000009 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 1408186000010 DnaA box-binding interface [nucleotide binding]; other site 1408186000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 1408186000012 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 1408186000013 putative DNA binding surface [nucleotide binding]; other site 1408186000014 dimer interface [polypeptide binding]; other site 1408186000015 beta-clamp/clamp loader binding surface; other site 1408186000016 beta-clamp/translesion DNA polymerase binding surface; other site 1408186000017 S4 domain; Region: S4_2; pfam13275 1408186000018 recombination protein F; Reviewed; Region: recF; PRK00064 1408186000019 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1408186000020 Walker A/P-loop; other site 1408186000021 ATP binding site [chemical binding]; other site 1408186000022 Q-loop/lid; other site 1408186000023 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186000024 ABC transporter signature motif; other site 1408186000025 Walker B; other site 1408186000026 D-loop; other site 1408186000027 H-loop/switch region; other site 1408186000028 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1408186000029 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 1408186000030 Mg2+ binding site [ion binding]; other site 1408186000031 G-X-G motif; other site 1408186000032 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 1408186000033 anchoring element; other site 1408186000034 dimer interface [polypeptide binding]; other site 1408186000035 ATP binding site [chemical binding]; other site 1408186000036 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 1408186000037 active site 1408186000038 putative metal-binding site [ion binding]; other site 1408186000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1408186000040 DNA gyrase subunit A; Validated; Region: PRK05560 1408186000041 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 1408186000042 CAP-like domain; other site 1408186000043 active site 1408186000044 primary dimer interface [polypeptide binding]; other site 1408186000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1408186000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1408186000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1408186000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1408186000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1408186000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1408186000051 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1408186000052 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1408186000053 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 1408186000054 dimer interface [polypeptide binding]; other site 1408186000055 ssDNA binding site [nucleotide binding]; other site 1408186000056 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1408186000057 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1408186000058 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1408186000059 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1408186000060 Cl binding site [ion binding]; other site 1408186000061 oligomer interface [polypeptide binding]; other site 1408186000062 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 1408186000063 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1408186000064 DHH family; Region: DHH; pfam01368 1408186000065 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1408186000066 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1408186000067 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1408186000068 replicative DNA helicase; Region: DnaB; TIGR00665 1408186000069 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1408186000070 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 1408186000071 Walker A motif; other site 1408186000072 ATP binding site [chemical binding]; other site 1408186000073 Walker B motif; other site 1408186000074 DNA binding loops [nucleotide binding] 1408186000075 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1408186000076 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1408186000077 nucleotide binding site [chemical binding]; other site 1408186000078 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 1408186000079 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1408186000080 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 1408186000081 Sterol carrier protein domain; Region: SCP2_2; pfam13530 1408186000082 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1408186000083 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1408186000084 putative acyl-acceptor binding pocket; other site 1408186000085 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1408186000086 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1408186000087 NAD(P) binding site [chemical binding]; other site 1408186000088 active site 1408186000089 Toxin Fst, type I toxin-antitoxin system; Region: Fst_toxin; pfam13955 1408186000090 Protein of unknown function (DUF975); Region: DUF975; pfam06161 1408186000091 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 1408186000092 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 1408186000093 motif II; other site 1408186000094 EDD domain protein, DegV family; Region: DegV; TIGR00762 1408186000095 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1408186000096 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1408186000097 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408186000098 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186000099 Walker A/P-loop; other site 1408186000100 ATP binding site [chemical binding]; other site 1408186000101 Q-loop/lid; other site 1408186000102 ABC transporter signature motif; other site 1408186000103 Walker B; other site 1408186000104 D-loop; other site 1408186000105 H-loop/switch region; other site 1408186000106 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1408186000107 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 1408186000108 non-specific DNA binding site [nucleotide binding]; other site 1408186000109 salt bridge; other site 1408186000110 sequence-specific DNA binding site [nucleotide binding]; other site 1408186000111 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1408186000112 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 1408186000113 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 1408186000114 G1 box; other site 1408186000115 putative GEF interaction site [polypeptide binding]; other site 1408186000116 GTP/Mg2+ binding site [chemical binding]; other site 1408186000117 Switch I region; other site 1408186000118 G2 box; other site 1408186000119 G3 box; other site 1408186000120 Switch II region; other site 1408186000121 G4 box; other site 1408186000122 G5 box; other site 1408186000123 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 1408186000124 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 1408186000125 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 1408186000126 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 1408186000127 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1408186000128 Cl- selectivity filter; other site 1408186000129 Cl- binding residues [ion binding]; other site 1408186000130 pore gating glutamate residue; other site 1408186000131 dimer interface [polypeptide binding]; other site 1408186000132 H+/Cl- coupling transport residue; other site 1408186000133 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1408186000134 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1408186000135 active site 1408186000136 Zn binding site [ion binding]; other site 1408186000137 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 1408186000138 non-specific DNA binding site [nucleotide binding]; other site 1408186000139 salt bridge; other site 1408186000140 sequence-specific DNA binding site [nucleotide binding]; other site 1408186000141 H+ Antiporter protein; Region: 2A0121; TIGR00900 1408186000142 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1408186000143 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 1408186000144 Integrase core domain; Region: rve; pfam00665 1408186000145 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1408186000146 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1408186000147 Cl binding site [ion binding]; other site 1408186000148 oligomer interface [polypeptide binding]; other site 1408186000149 CsbD-like; Region: CsbD; cl17424 1408186000150 Predicted membrane protein [Function unknown]; Region: COG2261 1408186000151 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 1408186000152 active site 1408186000153 putative catalytic site [active] 1408186000154 DNA binding site [nucleotide binding] 1408186000155 putative phosphate binding site [ion binding]; other site 1408186000156 metal binding site A [ion binding]; metal-binding site 1408186000157 AP binding site [nucleotide binding]; other site 1408186000158 metal binding site B [ion binding]; metal-binding site 1408186000159 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 1408186000160 PLD-like domain; Region: PLDc_2; pfam13091 1408186000161 putative homodimer interface [polypeptide binding]; other site 1408186000162 putative active site [active] 1408186000163 catalytic site [active] 1408186000164 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1408186000165 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 1408186000166 ATP binding site [chemical binding]; other site 1408186000167 putative Mg++ binding site [ion binding]; other site 1408186000168 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 1408186000169 nucleotide binding region [chemical binding]; other site 1408186000170 ATP-binding site [chemical binding]; other site 1408186000171 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 1408186000172 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 1408186000173 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408186000174 Protein of unknown function (DUF3923); Region: DUF3923; pfam13061 1408186000175 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1408186000176 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1408186000177 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 1408186000178 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1408186000179 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1408186000180 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1408186000181 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK06843 1408186000182 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 1408186000183 active site 1408186000184 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 1408186000185 catalytic triad [active] 1408186000186 oxyanion hole [active] 1408186000187 active site 1408186000188 D-lactate dehydrogenase; Validated; Region: PRK08605 1408186000189 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 1408186000190 homodimer interface [polypeptide binding]; other site 1408186000191 ligand binding site [chemical binding]; other site 1408186000192 NAD binding site [chemical binding]; other site 1408186000193 catalytic site [active] 1408186000194 MucBP domain; Region: MucBP; pfam06458 1408186000195 MucBP domain; Region: MucBP; pfam06458 1408186000196 MucBP domain; Region: MucBP; pfam06458 1408186000197 MucBP domain; Region: MucBP; pfam06458 1408186000198 MucBP domain; Region: MucBP; pfam06458 1408186000199 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1408186000200 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1408186000201 putative active site [active] 1408186000202 putative NTP binding site [chemical binding]; other site 1408186000203 putative nucleic acid binding site [nucleotide binding]; other site 1408186000204 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1408186000205 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 1408186000206 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1408186000207 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1408186000208 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 1408186000209 dimerization interface [polypeptide binding]; other site 1408186000210 FMN-binding domain; Region: FMN_bind; pfam04205 1408186000211 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 1408186000212 L-aspartate oxidase; Provisional; Region: PRK06175 1408186000213 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1408186000214 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1408186000215 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 1408186000216 S-adenosylmethionine binding site [chemical binding]; other site 1408186000217 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 1408186000218 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 1408186000219 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 1408186000220 active site 1408186000221 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 1408186000222 putative substrate translocation pore; other site 1408186000223 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 1408186000224 putative substrate translocation pore; other site 1408186000225 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 1408186000226 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 1408186000227 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1408186000228 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1408186000229 putative acyl-acceptor binding pocket; other site 1408186000230 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 1408186000231 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1408186000232 Ligand binding site; other site 1408186000233 metal-binding site 1408186000234 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 1408186000235 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1408186000236 Ligand binding site; other site 1408186000237 metal-binding site 1408186000238 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 1408186000239 active site 1408186000240 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1408186000241 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1408186000242 putative acyl-acceptor binding pocket; other site 1408186000243 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1408186000244 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 1408186000245 active site 1408186000246 phosphorylation site [posttranslational modification] 1408186000247 intermolecular recognition site; other site 1408186000248 dimerization interface [polypeptide binding]; other site 1408186000249 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 1408186000250 DNA binding site [nucleotide binding] 1408186000251 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1408186000252 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 1408186000253 dimerization interface [polypeptide binding]; other site 1408186000254 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 1408186000255 putative active site [active] 1408186000256 heme pocket [chemical binding]; other site 1408186000257 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 1408186000258 dimer interface [polypeptide binding]; other site 1408186000259 phosphorylation site [posttranslational modification] 1408186000260 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 1408186000261 ATP binding site [chemical binding]; other site 1408186000262 Mg2+ binding site [ion binding]; other site 1408186000263 G-X-G motif; other site 1408186000264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 1408186000265 YycH protein; Region: YycH; pfam07435 1408186000266 YycH protein; Region: YycI; pfam09648 1408186000267 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1408186000268 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1408186000269 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1408186000270 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 1408186000271 protein binding site [polypeptide binding]; other site 1408186000272 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1408186000273 Cobalt transport protein; Region: CbiQ; cl00463 1408186000274 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1408186000275 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1408186000276 Walker A/P-loop; other site 1408186000277 ATP binding site [chemical binding]; other site 1408186000278 Q-loop/lid; other site 1408186000279 ABC transporter signature motif; other site 1408186000280 Walker B; other site 1408186000281 D-loop; other site 1408186000282 H-loop/switch region; other site 1408186000283 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1408186000284 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 1408186000285 Walker A/P-loop; other site 1408186000286 ATP binding site [chemical binding]; other site 1408186000287 Q-loop/lid; other site 1408186000288 ABC transporter signature motif; other site 1408186000289 Walker B; other site 1408186000290 D-loop; other site 1408186000291 H-loop/switch region; other site 1408186000292 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 1408186000293 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1408186000294 heat shock protein HtpX; Provisional; Region: PRK04897 1408186000295 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1408186000296 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 1408186000297 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 1408186000298 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1408186000299 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1408186000300 DXD motif; other site 1408186000301 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 1408186000302 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1408186000303 Zn2+ binding site [ion binding]; other site 1408186000304 Mg2+ binding site [ion binding]; other site 1408186000305 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1408186000306 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 1408186000307 active site 1408186000308 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 1408186000309 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1408186000310 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1408186000311 Walker A/P-loop; other site 1408186000312 ATP binding site [chemical binding]; other site 1408186000313 Q-loop/lid; other site 1408186000314 ABC transporter signature motif; other site 1408186000315 Walker B; other site 1408186000316 D-loop; other site 1408186000317 H-loop/switch region; other site 1408186000318 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 1408186000319 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1408186000320 substrate binding pocket [chemical binding]; other site 1408186000321 membrane-bound complex binding site; other site 1408186000322 hinge residues; other site 1408186000323 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1408186000324 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 1408186000325 dimer interface [polypeptide binding]; other site 1408186000326 conserved gate region; other site 1408186000327 putative PBP binding loops; other site 1408186000328 ABC-ATPase subunit interface; other site 1408186000329 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1408186000330 active site 1408186000331 DNA binding site [nucleotide binding] 1408186000332 Protein of unknown function, DUF488; Region: DUF488; cl01246 1408186000333 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 1408186000334 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1408186000335 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1408186000336 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 1408186000337 DNA binding site [nucleotide binding] 1408186000338 active site 1408186000339 NAD-dependent deacetylase; Provisional; Region: PRK00481 1408186000340 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 1408186000341 NAD+ binding site [chemical binding]; other site 1408186000342 substrate binding site [chemical binding]; other site 1408186000343 putative Zn binding site [ion binding]; other site 1408186000344 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 1408186000345 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1408186000346 putative active site [active] 1408186000347 catalytic site [active] 1408186000348 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1408186000349 putative active site [active] 1408186000350 catalytic site [active] 1408186000351 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 1408186000352 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 1408186000353 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 1408186000354 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1408186000355 RNA/DNA hybrid binding site [nucleotide binding]; other site 1408186000356 active site 1408186000357 Predicted secreted protein [Function unknown]; Region: COG4086 1408186000358 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 1408186000359 putative glycosyl transferase; Provisional; Region: PRK10073 1408186000360 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 1408186000361 active site 1408186000362 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1408186000363 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1408186000364 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1408186000365 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1408186000366 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1408186000367 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408186000368 active site 1408186000369 CAAX protease self-immunity; Region: Abi; pfam02517 1408186000370 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1408186000371 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1408186000372 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1408186000373 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 1408186000374 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1408186000375 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1408186000376 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1408186000377 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1408186000378 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1408186000379 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1408186000380 YibE/F-like protein; Region: YibE_F; pfam07907 1408186000381 YibE/F-like protein; Region: YibE_F; pfam07907 1408186000382 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1408186000383 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1408186000384 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1408186000385 active site 1408186000386 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 1408186000387 catalytic site [active] 1408186000388 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 1408186000389 Interdomain contacts; other site 1408186000390 Cytokine receptor motif; other site 1408186000391 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1408186000392 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1408186000393 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1408186000394 DNA-binding site [nucleotide binding]; DNA binding site 1408186000395 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1408186000396 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 1408186000397 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 1408186000398 dimer interface [polypeptide binding]; other site 1408186000399 active site 1408186000400 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 1408186000401 putative active site [active] 1408186000402 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1408186000403 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 1408186000404 active site 1408186000405 dimer interface [polypeptide binding]; other site 1408186000406 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 1408186000407 active site 1408186000408 phosphorylation site [posttranslational modification] 1408186000409 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 1408186000410 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 1408186000411 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1408186000412 Double zinc ribbon; Region: DZR; pfam12773 1408186000413 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 1408186000414 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 1408186000415 active site 1408186000416 phosphorylation site [posttranslational modification] 1408186000417 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1408186000418 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1408186000419 DNA-binding site [nucleotide binding]; DNA binding site 1408186000420 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1408186000421 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 1408186000422 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 1408186000423 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 1408186000424 Ligand Binding Site [chemical binding]; other site 1408186000425 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 1408186000426 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 1408186000427 membrane-bound complex binding site; other site 1408186000428 hinge residues; other site 1408186000429 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1408186000430 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1408186000431 Walker A/P-loop; other site 1408186000432 ATP binding site [chemical binding]; other site 1408186000433 Q-loop/lid; other site 1408186000434 ABC transporter signature motif; other site 1408186000435 Walker B; other site 1408186000436 D-loop; other site 1408186000437 H-loop/switch region; other site 1408186000438 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1408186000439 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 1408186000440 dimer interface [polypeptide binding]; other site 1408186000441 conserved gate region; other site 1408186000442 ABC-ATPase subunit interface; other site 1408186000443 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1408186000444 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 1408186000445 dimer interface [polypeptide binding]; other site 1408186000446 conserved gate region; other site 1408186000447 putative PBP binding loops; other site 1408186000448 ABC-ATPase subunit interface; other site 1408186000449 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1408186000450 active site 1408186000451 metal binding site [ion binding]; metal-binding site 1408186000452 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1408186000453 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 1408186000454 active site 1408186000455 dimer interface [polypeptide binding]; other site 1408186000456 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 1408186000457 Ligand Binding Site [chemical binding]; other site 1408186000458 Molecular Tunnel; other site 1408186000459 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 1408186000460 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 1408186000461 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1408186000462 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1408186000463 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1408186000464 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 1408186000465 non-specific DNA binding site [nucleotide binding]; other site 1408186000466 salt bridge; other site 1408186000467 sequence-specific DNA binding site [nucleotide binding]; other site 1408186000468 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1408186000469 Helix-turn-helix domain; Region: HTH_38; pfam13936 1408186000470 Integrase core domain; Region: rve; pfam00665 1408186000471 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1408186000472 ATP cone domain; Region: ATP-cone; pfam03477 1408186000473 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1408186000474 effector binding site; other site 1408186000475 active site 1408186000476 Zn binding site [ion binding]; other site 1408186000477 glycine loop; other site 1408186000478 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 1408186000479 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 1408186000480 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1408186000481 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 1408186000482 Uncharacterized conserved protein [Function unknown]; Region: COG2461 1408186000483 Family of unknown function (DUF438); Region: DUF438; pfam04282 1408186000484 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 1408186000485 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 1408186000486 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1408186000487 putative substrate translocation pore; other site 1408186000488 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12858 1408186000489 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1408186000490 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1408186000491 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1408186000492 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 1408186000493 putative active site [active] 1408186000494 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1408186000495 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 1408186000496 putative substrate binding site [chemical binding]; other site 1408186000497 putative ATP binding site [chemical binding]; other site 1408186000498 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1408186000499 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1408186000500 active site 1408186000501 Zn binding site [ion binding]; other site 1408186000502 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 1408186000503 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 1408186000504 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 1408186000505 active site 1408186000506 metal-binding site [ion binding] 1408186000507 nucleotide-binding site [chemical binding]; other site 1408186000508 K+ potassium transporter; Region: K_trans; pfam02705 1408186000509 K+ potassium transporter; Region: K_trans; pfam02705 1408186000510 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 1408186000511 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1408186000512 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 1408186000513 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1408186000514 active site 1408186000515 Bacterial SH3 domain; Region: SH3_5; pfam08460 1408186000516 Bacterial SH3 domain; Region: SH3_5; pfam08460 1408186000517 Bacterial SH3 domain; Region: SH3_5; pfam08460 1408186000518 Bacterial SH3 domain; Region: SH3_5; pfam08460 1408186000519 Bacterial SH3 domain; Region: SH3_5; pfam08460 1408186000520 Bacterial SH3 domain; Region: SH3_5; pfam08460 1408186000521 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1408186000522 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 1408186000523 putative substrate binding site [chemical binding]; other site 1408186000524 putative ATP binding site [chemical binding]; other site 1408186000525 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1408186000526 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1408186000527 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1408186000528 TrkA-N domain; Region: TrkA_N; pfam02254 1408186000529 TrkA-C domain; Region: TrkA_C; pfam02080 1408186000530 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1408186000531 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1408186000532 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1408186000533 PAS domain; Region: PAS_10; pfam13596 1408186000534 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 1408186000535 catalytic core [active] 1408186000536 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 1408186000537 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1408186000538 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1408186000539 GtrA-like protein; Region: GtrA; pfam04138 1408186000540 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1408186000541 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1408186000542 Ligand binding site; other site 1408186000543 Putative Catalytic site; other site 1408186000544 DXD motif; other site 1408186000545 Sugar transport protein; Region: Sugar_transport; pfam06800 1408186000546 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 1408186000547 active site 1408186000548 catalytic residues [active] 1408186000549 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1408186000550 membrane protein; Provisional; Region: PRK14411 1408186000551 Sulfatase; Region: Sulfatase; cl17466 1408186000552 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408186000553 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 1408186000554 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1408186000555 active site 1408186000556 HIGH motif; other site 1408186000557 dimer interface [polypeptide binding]; other site 1408186000558 KMSKS motif; other site 1408186000559 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 1408186000560 RNA binding surface [nucleotide binding]; other site 1408186000561 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 1408186000562 trimer interface [polypeptide binding]; other site 1408186000563 active site 1408186000564 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1408186000565 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 1408186000566 trimer interface [polypeptide binding]; other site 1408186000567 active site 1408186000568 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1408186000569 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1408186000570 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1408186000571 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 1408186000572 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1408186000573 putative dimer interface [polypeptide binding]; other site 1408186000574 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1408186000575 beta-galactosidase; Region: BGL; TIGR03356 1408186000576 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1408186000577 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1408186000578 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1408186000579 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1408186000580 DNA-binding site [nucleotide binding]; DNA binding site 1408186000581 UTRA domain; Region: UTRA; pfam07702 1408186000582 Domain of unknown function (DUF3284); Region: DUF3284; pfam11687 1408186000583 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1408186000584 beta-galactosidase; Region: BGL; TIGR03356 1408186000585 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1408186000586 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1408186000587 DNA-binding site [nucleotide binding]; DNA binding site 1408186000588 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1408186000589 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 1408186000590 methionine cluster; other site 1408186000591 active site 1408186000592 phosphorylation site [posttranslational modification] 1408186000593 metal binding site [ion binding]; metal-binding site 1408186000594 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 1408186000595 active site 1408186000596 P-loop; other site 1408186000597 phosphorylation site [posttranslational modification] 1408186000598 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1408186000599 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1408186000600 beta-galactosidase; Region: BGL; TIGR03356 1408186000601 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1408186000602 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1408186000603 nucleotide binding site [chemical binding]; other site 1408186000604 CAAX protease self-immunity; Region: Abi; pfam02517 1408186000605 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 1408186000606 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1408186000607 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1408186000608 active site 1408186000609 HIGH motif; other site 1408186000610 dimer interface [polypeptide binding]; other site 1408186000611 KMSKS motif; other site 1408186000612 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 1408186000613 catalytic motif [active] 1408186000614 Zn binding site [ion binding]; other site 1408186000615 Repair protein; Region: Repair_PSII; cl01535 1408186000616 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1408186000617 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1408186000618 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1408186000619 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1408186000620 active site 1408186000621 HIGH motif; other site 1408186000622 KMSKS motif; other site 1408186000623 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1408186000624 tRNA binding surface [nucleotide binding]; other site 1408186000625 anticodon binding site; other site 1408186000626 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 1408186000627 dimer interface [polypeptide binding]; other site 1408186000628 putative tRNA-binding site [nucleotide binding]; other site 1408186000629 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1408186000630 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1408186000631 active site 1408186000632 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 1408186000633 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 1408186000634 putative active site [active] 1408186000635 putative metal binding site [ion binding]; other site 1408186000636 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 1408186000637 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1408186000638 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1408186000639 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 1408186000640 pur operon repressor; Provisional; Region: PRK09213 1408186000641 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 1408186000642 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408186000643 active site 1408186000644 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 1408186000645 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1408186000646 Substrate binding site; other site 1408186000647 Mg++ binding site; other site 1408186000648 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 1408186000649 active site 1408186000650 substrate binding site [chemical binding]; other site 1408186000651 CoA binding site [chemical binding]; other site 1408186000652 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1408186000653 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1408186000654 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408186000655 active site 1408186000656 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1408186000657 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1408186000658 DNA binding site [nucleotide binding] 1408186000659 domain linker motif; other site 1408186000660 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 1408186000661 ligand binding site [chemical binding]; other site 1408186000662 dimerization interface [polypeptide binding]; other site 1408186000663 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1408186000664 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 1408186000665 Ca binding site [ion binding]; other site 1408186000666 active site 1408186000667 catalytic site [active] 1408186000668 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 1408186000669 homodimer interface [polypeptide binding]; other site 1408186000670 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 1408186000671 active site 1408186000672 homodimer interface [polypeptide binding]; other site 1408186000673 catalytic site [active] 1408186000674 maltose phosphorylase; Provisional; Region: PRK13807 1408186000675 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 1408186000676 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 1408186000677 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 1408186000678 beta-phosphoglucomutase; Region: bPGM; TIGR01990 1408186000679 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 1408186000680 motif II; other site 1408186000681 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1408186000682 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1408186000683 Walker A/P-loop; other site 1408186000684 ATP binding site [chemical binding]; other site 1408186000685 Q-loop/lid; other site 1408186000686 ABC transporter signature motif; other site 1408186000687 Walker B; other site 1408186000688 D-loop; other site 1408186000689 H-loop/switch region; other site 1408186000690 TOBE domain; Region: TOBE_2; pfam08402 1408186000691 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 1408186000692 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1408186000693 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 1408186000694 dimer interface [polypeptide binding]; other site 1408186000695 conserved gate region; other site 1408186000696 putative PBP binding loops; other site 1408186000697 ABC-ATPase subunit interface; other site 1408186000698 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1408186000699 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 1408186000700 dimer interface [polypeptide binding]; other site 1408186000701 conserved gate region; other site 1408186000702 putative PBP binding loops; other site 1408186000703 ABC-ATPase subunit interface; other site 1408186000704 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1408186000705 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 1408186000706 Ca binding site [ion binding]; other site 1408186000707 active site 1408186000708 catalytic site [active] 1408186000709 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1408186000710 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 1408186000711 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1408186000712 Zn2+ binding site [ion binding]; other site 1408186000713 Mg2+ binding site [ion binding]; other site 1408186000714 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 1408186000715 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 1408186000716 CTP synthetase; Validated; Region: pyrG; PRK05380 1408186000717 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 1408186000718 Catalytic site [active] 1408186000719 active site 1408186000720 UTP binding site [chemical binding]; other site 1408186000721 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1408186000722 active site 1408186000723 putative oxyanion hole; other site 1408186000724 catalytic triad [active] 1408186000725 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1408186000726 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 1408186000727 hinge; other site 1408186000728 active site 1408186000729 xanthine permease; Region: pbuX; TIGR03173 1408186000730 xanthine phosphoribosyltransferase; Validated; Region: PRK09219 1408186000731 GMP synthase; Reviewed; Region: guaA; PRK00074 1408186000732 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1408186000733 AMP/PPi binding site [chemical binding]; other site 1408186000734 candidate oxyanion hole; other site 1408186000735 catalytic triad [active] 1408186000736 potential glutamine specificity residues [chemical binding]; other site 1408186000737 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 1408186000738 ATP Binding subdomain [chemical binding]; other site 1408186000739 Ligand Binding sites [chemical binding]; other site 1408186000740 Dimerization subdomain; other site 1408186000741 Predicted transcriptional regulators [Transcription]; Region: COG1733 1408186000742 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1408186000743 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1408186000744 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1408186000745 putative NAD(P) binding site [chemical binding]; other site 1408186000746 dimer interface [polypeptide binding]; other site 1408186000747 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1408186000748 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1408186000749 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1408186000750 substrate binding site [chemical binding]; other site 1408186000751 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1408186000752 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 1408186000753 non-specific DNA binding site [nucleotide binding]; other site 1408186000754 salt bridge; other site 1408186000755 sequence-specific DNA binding site [nucleotide binding]; other site 1408186000756 Fic family protein [Function unknown]; Region: COG3177 1408186000757 Fic/DOC family; Region: Fic; pfam02661 1408186000758 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1408186000759 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1408186000760 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1408186000761 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1408186000762 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1408186000763 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186000764 Walker A/P-loop; other site 1408186000765 ATP binding site [chemical binding]; other site 1408186000766 Q-loop/lid; other site 1408186000767 ABC transporter signature motif; other site 1408186000768 Walker B; other site 1408186000769 D-loop; other site 1408186000770 H-loop/switch region; other site 1408186000771 LytTr DNA-binding domain; Region: LytTR; smart00850 1408186000772 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 1408186000773 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1408186000774 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408186000775 Coenzyme A binding pocket [chemical binding]; other site 1408186000776 Predicted transcriptional regulator [Transcription]; Region: COG1959 1408186000777 Transcriptional regulator; Region: Rrf2; pfam02082 1408186000778 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 1408186000779 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1408186000780 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 1408186000781 dimer interface [polypeptide binding]; other site 1408186000782 FMN binding site [chemical binding]; other site 1408186000783 NADPH bind site [chemical binding]; other site 1408186000784 Peptidase family C69; Region: Peptidase_C69; pfam03577 1408186000785 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1408186000786 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 1408186000787 dimer interface [polypeptide binding]; other site 1408186000788 active site 1408186000789 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1408186000790 folate binding site [chemical binding]; other site 1408186000791 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 1408186000792 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1408186000793 zinc binding site [ion binding]; other site 1408186000794 putative ligand binding site [chemical binding]; other site 1408186000795 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 1408186000796 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1408186000797 TM-ABC transporter signature motif; other site 1408186000798 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1408186000799 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186000800 Walker A/P-loop; other site 1408186000801 ATP binding site [chemical binding]; other site 1408186000802 Q-loop/lid; other site 1408186000803 ABC transporter signature motif; other site 1408186000804 Walker B; other site 1408186000805 D-loop; other site 1408186000806 H-loop/switch region; other site 1408186000807 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1408186000808 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1408186000809 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1408186000810 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1408186000811 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1408186000812 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1408186000813 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 1408186000814 ATP binding site [chemical binding]; other site 1408186000815 Mg++ binding site [ion binding]; other site 1408186000816 motif III; other site 1408186000817 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 1408186000818 nucleotide binding region [chemical binding]; other site 1408186000819 ATP-binding site [chemical binding]; other site 1408186000820 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1408186000821 alanine racemase; Reviewed; Region: alr; PRK00053 1408186000822 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1408186000823 active site 1408186000824 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1408186000825 dimer interface [polypeptide binding]; other site 1408186000826 substrate binding site [chemical binding]; other site 1408186000827 catalytic residues [active] 1408186000828 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 1408186000829 FOG: CBS domain [General function prediction only]; Region: COG0517 1408186000830 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1408186000831 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1408186000832 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1408186000833 NAD binding site [chemical binding]; other site 1408186000834 dimer interface [polypeptide binding]; other site 1408186000835 substrate binding site [chemical binding]; other site 1408186000836 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 1408186000837 putative active site [active] 1408186000838 catalytic residue [active] 1408186000839 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1408186000840 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1408186000841 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 1408186000842 ATP binding site [chemical binding]; other site 1408186000843 putative Mg++ binding site [ion binding]; other site 1408186000844 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 1408186000845 nucleotide binding region [chemical binding]; other site 1408186000846 ATP-binding site [chemical binding]; other site 1408186000847 TRCF domain; Region: TRCF; pfam03461 1408186000848 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 1408186000849 RNA binding surface [nucleotide binding]; other site 1408186000850 Septum formation initiator; Region: DivIC; pfam04977 1408186000851 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1408186000852 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 1408186000853 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 1408186000854 RNA binding site [nucleotide binding]; other site 1408186000855 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1408186000856 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 1408186000857 Ligand Binding Site [chemical binding]; other site 1408186000858 FtsH Extracellular; Region: FtsH_ext; pfam06480 1408186000859 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1408186000860 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 1408186000861 Walker A motif; other site 1408186000862 ATP binding site [chemical binding]; other site 1408186000863 Walker B motif; other site 1408186000864 arginine finger; other site 1408186000865 Peptidase family M41; Region: Peptidase_M41; pfam01434 1408186000866 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 1408186000867 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 1408186000868 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1408186000869 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 1408186000870 dimerization interface [polypeptide binding]; other site 1408186000871 domain crossover interface; other site 1408186000872 redox-dependent activation switch; other site 1408186000873 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1408186000874 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 1408186000875 FMN binding site [chemical binding]; other site 1408186000876 active site 1408186000877 catalytic residues [active] 1408186000878 substrate binding site [chemical binding]; other site 1408186000879 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1408186000880 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 1408186000881 dimer interface [polypeptide binding]; other site 1408186000882 putative anticodon binding site; other site 1408186000883 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 1408186000884 motif 1; other site 1408186000885 active site 1408186000886 motif 2; other site 1408186000887 motif 3; other site 1408186000888 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1408186000889 Clp amino terminal domain; Region: Clp_N; pfam02861 1408186000890 Clp amino terminal domain; Region: Clp_N; pfam02861 1408186000891 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 1408186000892 Walker A motif; other site 1408186000893 ATP binding site [chemical binding]; other site 1408186000894 Walker B motif; other site 1408186000895 arginine finger; other site 1408186000896 UvrB/uvrC motif; Region: UVR; pfam02151 1408186000897 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 1408186000898 Walker A motif; other site 1408186000899 ATP binding site [chemical binding]; other site 1408186000900 Walker B motif; other site 1408186000901 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1408186000902 DNA-directed RNA polymerase, beta subunit; Region: rpoB; TIGR02013 1408186000903 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 1408186000904 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1408186000905 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1408186000906 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 1408186000907 RPB1 interaction site [polypeptide binding]; other site 1408186000908 RPB10 interaction site [polypeptide binding]; other site 1408186000909 RPB11 interaction site [polypeptide binding]; other site 1408186000910 RPB3 interaction site [polypeptide binding]; other site 1408186000911 RPB12 interaction site [polypeptide binding]; other site 1408186000912 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1408186000913 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1408186000914 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1408186000915 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1408186000916 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1408186000917 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1408186000918 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1408186000919 DNA binding site [nucleotide binding] 1408186000920 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1408186000921 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 1408186000922 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1408186000923 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 1408186000924 S17 interaction site [polypeptide binding]; other site 1408186000925 S8 interaction site; other site 1408186000926 16S rRNA interaction site [nucleotide binding]; other site 1408186000927 streptomycin interaction site [chemical binding]; other site 1408186000928 23S rRNA interaction site [nucleotide binding]; other site 1408186000929 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1408186000930 30S ribosomal protein S7; Validated; Region: PRK05302 1408186000931 elongation factor G; Reviewed; Region: PRK12739 1408186000932 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1408186000933 G1 box; other site 1408186000934 putative GEF interaction site [polypeptide binding]; other site 1408186000935 GTP/Mg2+ binding site [chemical binding]; other site 1408186000936 Switch I region; other site 1408186000937 G2 box; other site 1408186000938 G3 box; other site 1408186000939 Switch II region; other site 1408186000940 G4 box; other site 1408186000941 G5 box; other site 1408186000942 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 1408186000943 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 1408186000944 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 1408186000945 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1408186000946 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1408186000947 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1408186000948 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1408186000949 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1408186000950 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1408186000951 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1408186000952 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1408186000953 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 1408186000954 putative translocon binding site; other site 1408186000955 protein-rRNA interface [nucleotide binding]; other site 1408186000956 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1408186000957 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 1408186000958 G-X-X-G motif; other site 1408186000959 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1408186000960 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 1408186000961 23S rRNA interface [nucleotide binding]; other site 1408186000962 5S rRNA interface [nucleotide binding]; other site 1408186000963 putative antibiotic binding site [chemical binding]; other site 1408186000964 L25 interface [polypeptide binding]; other site 1408186000965 L27 interface [polypeptide binding]; other site 1408186000966 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 1408186000967 23S rRNA interface [nucleotide binding]; other site 1408186000968 putative translocon interaction site; other site 1408186000969 signal recognition particle (SRP54) interaction site; other site 1408186000970 L23 interface [polypeptide binding]; other site 1408186000971 trigger factor interaction site; other site 1408186000972 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1408186000973 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1408186000974 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1408186000975 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1408186000976 RNA binding site [nucleotide binding]; other site 1408186000977 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1408186000978 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1408186000979 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1408186000980 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 1408186000981 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1408186000982 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1408186000983 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1408186000984 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1408186000985 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 1408186000986 23S rRNA interface [nucleotide binding]; other site 1408186000987 L21e interface [polypeptide binding]; other site 1408186000988 5S rRNA interface [nucleotide binding]; other site 1408186000989 L27 interface [polypeptide binding]; other site 1408186000990 L5 interface [polypeptide binding]; other site 1408186000991 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1408186000992 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1408186000993 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1408186000994 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 1408186000995 23S rRNA binding site [nucleotide binding]; other site 1408186000996 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1408186000997 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1408186000998 SecY translocase; Region: SecY; pfam00344 1408186000999 adenylate kinase; Reviewed; Region: adk; PRK00279 1408186001000 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 1408186001001 AMP-binding site [chemical binding]; other site 1408186001002 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1408186001003 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 1408186001004 rRNA binding site [nucleotide binding]; other site 1408186001005 predicted 30S ribosome binding site; other site 1408186001006 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 1408186001007 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1408186001008 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1408186001009 30S ribosomal protein S11; Validated; Region: PRK05309 1408186001010 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1408186001011 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1408186001012 alphaNTD homodimer interface [polypeptide binding]; other site 1408186001013 alphaNTD - beta interaction site [polypeptide binding]; other site 1408186001014 alphaNTD - beta' interaction site [polypeptide binding]; other site 1408186001015 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1408186001016 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1408186001017 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13640 1408186001018 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1408186001019 Walker A/P-loop; other site 1408186001020 ATP binding site [chemical binding]; other site 1408186001021 Q-loop/lid; other site 1408186001022 ABC transporter signature motif; other site 1408186001023 Walker B; other site 1408186001024 D-loop; other site 1408186001025 H-loop/switch region; other site 1408186001026 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13641 1408186001027 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1408186001028 Walker A/P-loop; other site 1408186001029 ATP binding site [chemical binding]; other site 1408186001030 Q-loop/lid; other site 1408186001031 ABC transporter signature motif; other site 1408186001032 Walker B; other site 1408186001033 D-loop; other site 1408186001034 H-loop/switch region; other site 1408186001035 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1408186001036 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1408186001037 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1408186001038 dimerization interface 3.5A [polypeptide binding]; other site 1408186001039 active site 1408186001040 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 1408186001041 23S rRNA interface [nucleotide binding]; other site 1408186001042 L3 interface [polypeptide binding]; other site 1408186001043 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1408186001044 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1408186001045 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1408186001046 Walker A/P-loop; other site 1408186001047 ATP binding site [chemical binding]; other site 1408186001048 Q-loop/lid; other site 1408186001049 ABC transporter signature motif; other site 1408186001050 Walker B; other site 1408186001051 D-loop; other site 1408186001052 H-loop/switch region; other site 1408186001053 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408186001054 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1408186001055 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186001056 Walker A/P-loop; other site 1408186001057 ATP binding site [chemical binding]; other site 1408186001058 Q-loop/lid; other site 1408186001059 ABC transporter signature motif; other site 1408186001060 Walker B; other site 1408186001061 D-loop; other site 1408186001062 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 1408186001063 catalytic core [active] 1408186001064 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 1408186001065 dimerization interface [polypeptide binding]; other site 1408186001066 putative DNA binding site [nucleotide binding]; other site 1408186001067 putative Zn2+ binding site [ion binding]; other site 1408186001068 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1408186001069 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1408186001070 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 1408186001071 catalytic core [active] 1408186001072 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 1408186001073 AAA domain; Region: AAA_33; pfam13671 1408186001074 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 1408186001075 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1408186001076 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 1408186001077 accessory Sec system translocase SecY2; Region: acc_sec_Y2; TIGR02920 1408186001078 SecY translocase; Region: SecY; pfam00344 1408186001079 accessory Sec system protein Asp1; Region: acc_sec_asp1; TIGR03713 1408186001080 accessory Sec system protein Asp2; Region: acc_sec_asp2; TIGR03712 1408186001081 accessory Sec system protein Asp3; Region: acc_sec_asp3; TIGR03711 1408186001082 accessory Sec system translocase SecA2; Region: secA2; TIGR03714 1408186001083 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 1408186001084 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 1408186001085 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 1408186001086 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 1408186001087 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 1408186001088 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 1408186001089 active site 1408186001090 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 1408186001091 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 1408186001092 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 1408186001093 trimer interface [polypeptide binding]; other site 1408186001094 active site 1408186001095 G bulge; other site 1408186001096 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1408186001097 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1408186001098 trimer interface [polypeptide binding]; other site 1408186001099 active site 1408186001100 DNA repair protein RadA; Provisional; Region: PRK11823 1408186001101 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 1408186001102 Walker A motif/ATP binding site; other site 1408186001103 ATP binding site [chemical binding]; other site 1408186001104 Walker B motif; other site 1408186001105 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1408186001106 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1408186001107 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1408186001108 active site 1408186001109 HIGH motif; other site 1408186001110 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1408186001111 active site 1408186001112 KMSKS motif; other site 1408186001113 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1408186001114 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1408186001115 active site 1408186001116 HIGH motif; other site 1408186001117 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1408186001118 KMSKS motif; other site 1408186001119 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1408186001120 tRNA binding surface [nucleotide binding]; other site 1408186001121 anticodon binding site; other site 1408186001122 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 1408186001123 active site 1408186001124 metal binding site [ion binding]; metal-binding site 1408186001125 dimerization interface [polypeptide binding]; other site 1408186001126 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1408186001127 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1408186001128 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1408186001129 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1408186001130 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1408186001131 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 1408186001132 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 1408186001133 N- and C-terminal domain interface [polypeptide binding]; other site 1408186001134 active site 1408186001135 catalytic site [active] 1408186001136 metal binding site [ion binding]; metal-binding site 1408186001137 carbohydrate binding site [chemical binding]; other site 1408186001138 ATP binding site [chemical binding]; other site 1408186001139 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 1408186001140 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 1408186001141 TPP-binding site; other site 1408186001142 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 1408186001143 PYR/PP interface [polypeptide binding]; other site 1408186001144 dimer interface [polypeptide binding]; other site 1408186001145 TPP binding site [chemical binding]; other site 1408186001146 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1408186001147 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 1408186001148 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1408186001149 putative substrate translocation pore; other site 1408186001150 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1408186001151 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1408186001152 substrate binding pocket [chemical binding]; other site 1408186001153 chain length determination region; other site 1408186001154 substrate-Mg2+ binding site; other site 1408186001155 catalytic residues [active] 1408186001156 aspartate-rich region 1; other site 1408186001157 active site lid residues [active] 1408186001158 aspartate-rich region 2; other site 1408186001159 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 1408186001160 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1408186001161 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1408186001162 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1408186001163 putative homodimer interface [polypeptide binding]; other site 1408186001164 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1408186001165 heterodimer interface [polypeptide binding]; other site 1408186001166 homodimer interface [polypeptide binding]; other site 1408186001167 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1408186001168 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 1408186001169 23S rRNA interface [nucleotide binding]; other site 1408186001170 L7/L12 interface [polypeptide binding]; other site 1408186001171 putative thiostrepton binding site; other site 1408186001172 L25 interface [polypeptide binding]; other site 1408186001173 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 1408186001174 mRNA/rRNA interface [nucleotide binding]; other site 1408186001175 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1408186001176 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 1408186001177 dimer interface [polypeptide binding]; other site 1408186001178 conserved gate region; other site 1408186001179 putative PBP binding loops; other site 1408186001180 ABC-ATPase subunit interface; other site 1408186001181 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1408186001182 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186001183 Walker A/P-loop; other site 1408186001184 ATP binding site [chemical binding]; other site 1408186001185 Q-loop/lid; other site 1408186001186 ABC transporter signature motif; other site 1408186001187 Walker B; other site 1408186001188 D-loop; other site 1408186001189 H-loop/switch region; other site 1408186001190 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1408186001191 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 1408186001192 substrate binding pocket [chemical binding]; other site 1408186001193 membrane-bound complex binding site; other site 1408186001194 hinge residues; other site 1408186001195 L10 leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408186001196 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 1408186001197 23S rRNA interface [nucleotide binding]; other site 1408186001198 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1408186001199 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 1408186001200 core dimer interface [polypeptide binding]; other site 1408186001201 peripheral dimer interface [polypeptide binding]; other site 1408186001202 L10 interface [polypeptide binding]; other site 1408186001203 L11 interface [polypeptide binding]; other site 1408186001204 putative EF-Tu interaction site [polypeptide binding]; other site 1408186001205 putative EF-G interaction site [polypeptide binding]; other site 1408186001206 Ion transport protein; Region: Ion_trans; pfam00520 1408186001207 Ion channel; Region: Ion_trans_2; pfam07885 1408186001208 Centromere protein H (CENP-H); Region: CENP-H; pfam05837 1408186001209 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1408186001210 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 1408186001211 S-adenosylmethionine binding site [chemical binding]; other site 1408186001212 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 1408186001213 nucleoside/Zn binding site; other site 1408186001214 dimer interface [polypeptide binding]; other site 1408186001215 catalytic motif [active] 1408186001216 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 1408186001217 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 1408186001218 Walker A motif; other site 1408186001219 ATP binding site [chemical binding]; other site 1408186001220 Walker B motif; other site 1408186001221 hypothetical protein; Validated; Region: PRK00153 1408186001222 recombination protein RecR; Reviewed; Region: recR; PRK00076 1408186001223 RecR protein; Region: RecR; pfam02132 1408186001224 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 1408186001225 putative active site [active] 1408186001226 putative metal-binding site [ion binding]; other site 1408186001227 tetramer interface [polypeptide binding]; other site 1408186001228 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 1408186001229 thymidylate kinase; Validated; Region: tmk; PRK00698 1408186001230 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 1408186001231 TMP-binding site; other site 1408186001232 ATP-binding site [chemical binding]; other site 1408186001233 Protein of unknown function (DUF970); Region: DUF970; cl17525 1408186001234 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 1408186001235 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 1408186001236 Predicted methyltransferases [General function prediction only]; Region: COG0313 1408186001237 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1408186001238 putative SAM binding site [chemical binding]; other site 1408186001239 putative homodimer interface [polypeptide binding]; other site 1408186001240 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 1408186001241 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 1408186001242 active site 1408186001243 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 1408186001244 active site 2 [active] 1408186001245 active site 1 [active] 1408186001246 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1408186001247 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1408186001248 Glycoprotease family; Region: Peptidase_M22; pfam00814 1408186001249 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1408186001250 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408186001251 Coenzyme A binding pocket [chemical binding]; other site 1408186001252 UGMP family protein; Validated; Region: PRK09604 1408186001253 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1408186001254 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 1408186001255 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 1408186001256 RelB antitoxin; Region: RelB; cl01171 1408186001257 AAA domain; Region: AAA_21; pfam13304 1408186001258 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186001259 Walker A/P-loop; other site 1408186001260 ATP binding site [chemical binding]; other site 1408186001261 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1408186001262 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 1408186001263 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 1408186001264 active site 1408186001265 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1408186001266 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 1408186001267 GDP-binding site [chemical binding]; other site 1408186001268 ACT binding site; other site 1408186001269 IMP binding site; other site 1408186001270 adenylosuccinate lyase; Provisional; Region: PRK07492 1408186001271 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1408186001272 tetramer interface [polypeptide binding]; other site 1408186001273 active site 1408186001274 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 1408186001275 active site 1408186001276 Ap4A binding cleft/pocket [chemical binding]; other site 1408186001277 P4 phosphate binding site; other site 1408186001278 nudix motif; other site 1408186001279 putative P2/P3 phosphate binding site [ion binding]; other site 1408186001280 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1408186001281 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1408186001282 putative active site [active] 1408186001283 putative NTP binding site [chemical binding]; other site 1408186001284 putative nucleic acid binding site [nucleotide binding]; other site 1408186001285 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1408186001286 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 1408186001287 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1408186001288 Helix-turn-helix domain; Region: HTH_38; pfam13936 1408186001289 Integrase core domain; Region: rve; pfam00665 1408186001290 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1408186001291 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 1408186001292 active site 1408186001293 phosphorylation site [posttranslational modification] 1408186001294 intermolecular recognition site; other site 1408186001295 dimerization interface [polypeptide binding]; other site 1408186001296 LytTr DNA-binding domain; Region: LytTR; pfam04397 1408186001297 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1408186001298 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1408186001299 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 1408186001300 nudix motif; other site 1408186001301 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 1408186001302 non-specific DNA binding site [nucleotide binding]; other site 1408186001303 salt bridge; other site 1408186001304 sequence-specific DNA binding site [nucleotide binding]; other site 1408186001305 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1408186001306 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1408186001307 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1408186001308 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1408186001309 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1408186001310 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1408186001311 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186001312 Walker A/P-loop; other site 1408186001313 ATP binding site [chemical binding]; other site 1408186001314 Q-loop/lid; other site 1408186001315 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1408186001316 ABC transporter; Region: ABC_tran_2; pfam12848 1408186001317 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1408186001318 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1408186001319 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1408186001320 CoA binding domain; Region: CoA_binding; pfam02629 1408186001321 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1408186001322 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 1408186001323 LytTr DNA-binding domain; Region: LytTR; smart00850 1408186001324 Protein of unknown function (DUF2663); Region: DUF2663; pfam10864 1408186001325 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 1408186001326 oligomerisation interface [polypeptide binding]; other site 1408186001327 mobile loop; other site 1408186001328 roof hairpin; other site 1408186001329 chaperonin GroL; Region: GroEL; TIGR02348 1408186001330 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 1408186001331 ring oligomerisation interface [polypeptide binding]; other site 1408186001332 ATP/Mg binding site [chemical binding]; other site 1408186001333 stacking interactions; other site 1408186001334 hinge regions; other site 1408186001335 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1408186001336 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1408186001337 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1408186001338 Helix-turn-helix domain; Region: HTH_38; pfam13936 1408186001339 Integrase core domain; Region: rve; pfam00665 1408186001340 RelB antitoxin; Region: RelB; cl01171 1408186001341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 1408186001342 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1408186001343 MutS domain I; Region: MutS_I; pfam01624 1408186001344 MutS domain II; Region: MutS_II; pfam05188 1408186001345 MutS domain III; Region: MutS_III; pfam05192 1408186001346 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1408186001347 Walker A/P-loop; other site 1408186001348 ATP binding site [chemical binding]; other site 1408186001349 Q-loop/lid; other site 1408186001350 ABC transporter signature motif; other site 1408186001351 Walker B; other site 1408186001352 D-loop; other site 1408186001353 H-loop/switch region; other site 1408186001354 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1408186001355 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 1408186001356 ATP binding site [chemical binding]; other site 1408186001357 Mg2+ binding site [ion binding]; other site 1408186001358 G-X-G motif; other site 1408186001359 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 1408186001360 ATP binding site [chemical binding]; other site 1408186001361 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1408186001362 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1408186001363 RuvA N terminal domain; Region: RuvA_N; pfam01330 1408186001364 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1408186001365 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1408186001366 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 1408186001367 Walker A motif; other site 1408186001368 ATP binding site [chemical binding]; other site 1408186001369 Walker B motif; other site 1408186001370 arginine finger; other site 1408186001371 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1408186001372 Preprotein translocase subunit; Region: YajC; cl00806 1408186001373 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1408186001374 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1408186001375 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1408186001376 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1408186001377 active site 1408186001378 DNA polymerase IV; Validated; Region: PRK02406 1408186001379 DNA binding site [nucleotide binding] 1408186001380 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1408186001381 DHH family; Region: DHH; pfam01368 1408186001382 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 1408186001383 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1408186001384 ATP binding site [chemical binding]; other site 1408186001385 putative Mg++ binding site [ion binding]; other site 1408186001386 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 1408186001387 nucleotide binding region [chemical binding]; other site 1408186001388 ATP-binding site [chemical binding]; other site 1408186001389 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408186001390 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1408186001391 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 1408186001392 motif 1; other site 1408186001393 active site 1408186001394 motif 2; other site 1408186001395 motif 3; other site 1408186001396 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1408186001397 DHHA1 domain; Region: DHHA1; pfam02272 1408186001398 hypothetical protein; Provisional; Region: PRK05473 1408186001399 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1408186001400 hypothetical protein; Provisional; Region: PRK13678 1408186001401 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1408186001402 Colicin V production protein; Region: Colicin_V; pfam02674 1408186001403 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1408186001404 MutS domain III; Region: MutS_III; pfam05192 1408186001405 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186001406 Walker A/P-loop; other site 1408186001407 ATP binding site [chemical binding]; other site 1408186001408 Q-loop/lid; other site 1408186001409 ABC transporter signature motif; other site 1408186001410 Walker B; other site 1408186001411 D-loop; other site 1408186001412 H-loop/switch region; other site 1408186001413 Smr domain; Region: Smr; pfam01713 1408186001414 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 1408186001415 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1408186001416 catalytic residues [active] 1408186001417 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 1408186001418 glutamate racemase; Provisional; Region: PRK00865 1408186001419 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 1408186001420 active site 1408186001421 dimerization interface [polypeptide binding]; other site 1408186001422 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1408186001423 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1408186001424 putative active site [active] 1408186001425 putative NTP binding site [chemical binding]; other site 1408186001426 putative nucleic acid binding site [nucleotide binding]; other site 1408186001427 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1408186001428 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1408186001429 propionate/acetate kinase; Provisional; Region: PRK12379 1408186001430 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1408186001431 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1408186001432 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 1408186001433 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1408186001434 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1408186001435 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 1408186001436 active site 1408186001437 catabolite control protein A; Region: ccpA; TIGR01481 1408186001438 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1408186001439 DNA binding site [nucleotide binding] 1408186001440 domain linker motif; other site 1408186001441 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 1408186001442 dimerization interface [polypeptide binding]; other site 1408186001443 effector binding site; other site 1408186001444 Transglycosylase; Region: Transgly; pfam00912 1408186001445 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1408186001446 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1408186001447 dipeptidase PepV; Reviewed; Region: PRK07318 1408186001448 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1408186001449 active site 1408186001450 metal binding site [ion binding]; metal-binding site 1408186001451 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1408186001452 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1408186001453 active site 1408186001454 catalytic site [active] 1408186001455 metal binding site [ion binding]; metal-binding site 1408186001456 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1408186001457 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 1408186001458 active site 1408186001459 metal binding site [ion binding]; metal-binding site 1408186001460 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1408186001461 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 1408186001462 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 1408186001463 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 1408186001464 active site 1408186001465 motif I; other site 1408186001466 motif II; other site 1408186001467 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 1408186001468 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 1408186001469 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1408186001470 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1408186001471 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1408186001472 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1408186001473 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1408186001474 general stress protein 13; Validated; Region: PRK08059 1408186001475 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 1408186001476 RNA binding site [nucleotide binding]; other site 1408186001477 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1408186001478 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1408186001479 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1408186001480 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1408186001481 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 1408186001482 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1408186001483 putative substrate translocation pore; other site 1408186001484 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 1408186001485 HTH-like domain; Region: HTH_21; pfam13276 1408186001486 Integrase core domain; Region: rve; pfam00665 1408186001487 Integrase core domain; Region: rve_2; pfam13333 1408186001488 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1408186001489 Transposase; Region: HTH_Tnp_1; cl17663 1408186001490 Helix-turn-helix domain; Region: HTH_28; pfam13518 1408186001491 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1408186001492 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 1408186001493 active site 1408186001494 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408186001495 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1408186001496 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1408186001497 HIGH motif; other site 1408186001498 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1408186001499 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1408186001500 active site 1408186001501 KMSKS motif; other site 1408186001502 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1408186001503 tRNA binding surface [nucleotide binding]; other site 1408186001504 stage V sporulation protein B; Region: spore_V_B; TIGR02900 1408186001505 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1408186001506 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 1408186001507 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 1408186001508 putative substrate binding site [chemical binding]; other site 1408186001509 putative ATP binding site [chemical binding]; other site 1408186001510 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1408186001511 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1408186001512 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408186001513 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 1408186001514 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1408186001515 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1408186001516 active site 1408186001517 HIGH motif; other site 1408186001518 KMSK motif region; other site 1408186001519 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1408186001520 tRNA binding surface [nucleotide binding]; other site 1408186001521 anticodon binding site; other site 1408186001522 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 1408186001523 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1408186001524 intersubunit interface [polypeptide binding]; other site 1408186001525 active site 1408186001526 zinc binding site [ion binding]; other site 1408186001527 Na+ binding site [ion binding]; other site 1408186001528 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408186001529 active site 1408186001530 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1408186001531 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1408186001532 catalytic triad [active] 1408186001533 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1408186001534 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1408186001535 NAD(P) binding site [chemical binding]; other site 1408186001536 putative active site [active] 1408186001537 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1408186001538 Probable transposase; Region: OrfB_IS605; pfam01385 1408186001539 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1408186001540 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1408186001541 Sec23/Sec24 zinc finger; Region: zf-Sec23_Sec24; pfam04810 1408186001542 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1408186001543 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1408186001544 GAF domain; Region: GAF_2; pfam13185 1408186001545 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 1408186001546 Cl- selectivity filter; other site 1408186001547 Cl- binding residues [ion binding]; other site 1408186001548 pore gating glutamate residue; other site 1408186001549 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 1408186001550 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1408186001551 Predicted permeases [General function prediction only]; Region: COG0679 1408186001552 CAAX protease self-immunity; Region: Abi; pfam02517 1408186001553 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 1408186001554 amphipathic channel; other site 1408186001555 Asn-Pro-Ala signature motifs; other site 1408186001556 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 1408186001557 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1408186001558 putative substrate translocation pore; other site 1408186001559 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 1408186001560 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1408186001561 Transposase; Region: HTH_Tnp_1; cl17663 1408186001562 Helix-turn-helix domain; Region: HTH_28; pfam13518 1408186001563 HTH-like domain; Region: HTH_21; pfam13276 1408186001564 Integrase core domain; Region: rve; pfam00665 1408186001565 Integrase core domain; Region: rve_2; pfam13333 1408186001566 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408186001567 Coenzyme A binding pocket [chemical binding]; other site 1408186001568 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 1408186001569 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 1408186001570 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1408186001571 active site 1408186001572 motif I; other site 1408186001573 motif II; other site 1408186001574 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 1408186001575 uracil transporter; Provisional; Region: PRK10720 1408186001576 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1408186001577 glutaminase A; Region: Gln_ase; TIGR03814 1408186001578 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 1408186001579 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1408186001580 active site 1408186001581 Phospholipase B; Region: Phospholip_B; pfam04916 1408186001582 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 1408186001583 trimer interface [polypeptide binding]; other site 1408186001584 active site 1408186001585 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 1408186001586 Peptidase family C69; Region: Peptidase_C69; pfam03577 1408186001587 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 1408186001588 trimer interface [polypeptide binding]; other site 1408186001589 active site 1408186001590 G bulge; other site 1408186001591 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 1408186001592 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1408186001593 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1408186001594 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 1408186001595 Amino acid permease; Region: AA_permease_2; pfam13520 1408186001596 drug efflux system protein MdtG; Provisional; Region: PRK09874 1408186001597 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 1408186001598 putative substrate translocation pore; other site 1408186001599 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1408186001600 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1408186001601 oligomer interface [polypeptide binding]; other site 1408186001602 active site 1408186001603 metal binding site [ion binding]; metal-binding site 1408186001604 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 1408186001605 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1408186001606 Walker A/P-loop; other site 1408186001607 ATP binding site [chemical binding]; other site 1408186001608 Q-loop/lid; other site 1408186001609 ABC transporter signature motif; other site 1408186001610 Walker B; other site 1408186001611 D-loop; other site 1408186001612 H-loop/switch region; other site 1408186001613 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 1408186001614 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 1408186001615 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 1408186001616 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1408186001617 Spore germination protein; Region: Spore_permease; cl17796 1408186001618 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 1408186001619 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 1408186001620 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 1408186001621 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 1408186001622 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1408186001623 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 1408186001624 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1408186001625 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 1408186001626 putative substrate translocation pore; other site 1408186001627 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 1408186001628 Peptidase family C69; Region: Peptidase_C69; pfam03577 1408186001629 benzoate transport; Region: 2A0115; TIGR00895 1408186001630 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 1408186001631 putative substrate translocation pore; other site 1408186001632 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 1408186001633 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1408186001634 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408186001635 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186001636 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1408186001637 Walker A/P-loop; other site 1408186001638 ATP binding site [chemical binding]; other site 1408186001639 Q-loop/lid; other site 1408186001640 ABC transporter signature motif; other site 1408186001641 Walker B; other site 1408186001642 D-loop; other site 1408186001643 H-loop/switch region; other site 1408186001644 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1408186001645 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408186001646 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1408186001647 Walker A/P-loop; other site 1408186001648 ATP binding site [chemical binding]; other site 1408186001649 Q-loop/lid; other site 1408186001650 ABC transporter signature motif; other site 1408186001651 Walker B; other site 1408186001652 D-loop; other site 1408186001653 H-loop/switch region; other site 1408186001654 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1408186001655 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 1408186001656 substrate binding pocket [chemical binding]; other site 1408186001657 membrane-bound complex binding site; other site 1408186001658 hinge residues; other site 1408186001659 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408186001660 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1408186001661 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1408186001662 Walker A/P-loop; other site 1408186001663 ATP binding site [chemical binding]; other site 1408186001664 Q-loop/lid; other site 1408186001665 ABC transporter signature motif; other site 1408186001666 Walker B; other site 1408186001667 D-loop; other site 1408186001668 H-loop/switch region; other site 1408186001669 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 1408186001670 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1408186001671 substrate binding pocket [chemical binding]; other site 1408186001672 membrane-bound complex binding site; other site 1408186001673 hinge residues; other site 1408186001674 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1408186001675 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 1408186001676 dimer interface [polypeptide binding]; other site 1408186001677 conserved gate region; other site 1408186001678 putative PBP binding loops; other site 1408186001679 ABC-ATPase subunit interface; other site 1408186001680 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 1408186001681 dimer interface [polypeptide binding]; other site 1408186001682 conserved gate region; other site 1408186001683 putative PBP binding loops; other site 1408186001684 ABC-ATPase subunit interface; other site 1408186001685 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1408186001686 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1408186001687 putative active site [active] 1408186001688 putative NTP binding site [chemical binding]; other site 1408186001689 putative nucleic acid binding site [nucleotide binding]; other site 1408186001690 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1408186001691 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 1408186001692 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1408186001693 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1408186001694 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1408186001695 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 1408186001696 Sugar specificity; other site 1408186001697 Pyrimidine base specificity; other site 1408186001698 ATP-binding site [chemical binding]; other site 1408186001699 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1408186001700 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1408186001701 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1408186001702 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1408186001703 Probable transposase; Region: OrfB_IS605; pfam01385 1408186001704 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1408186001705 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1408186001706 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 1408186001707 active site 1408186001708 phosphorylation site [posttranslational modification] 1408186001709 intermolecular recognition site; other site 1408186001710 dimerization interface [polypeptide binding]; other site 1408186001711 LytTr DNA-binding domain; Region: LytTR; pfam04397 1408186001712 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 1408186001713 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 1408186001714 putative active site [active] 1408186001715 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408186001716 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186001717 Walker A/P-loop; other site 1408186001718 ATP binding site [chemical binding]; other site 1408186001719 Q-loop/lid; other site 1408186001720 ABC transporter signature motif; other site 1408186001721 Walker B; other site 1408186001722 D-loop; other site 1408186001723 H-loop/switch region; other site 1408186001724 HlyD family secretion protein; Region: HlyD_3; pfam13437 1408186001725 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 1408186001726 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 1408186001727 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1408186001728 Helix-turn-helix domain; Region: HTH_38; pfam13936 1408186001729 Integrase core domain; Region: rve; pfam00665 1408186001730 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186001731 Walker B; other site 1408186001732 D-loop; other site 1408186001733 H-loop/switch region; other site 1408186001734 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1408186001735 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1408186001736 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1408186001737 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1408186001738 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1408186001739 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1408186001740 phosphoglycolate phosphatase; Provisional; Region: PRK01158 1408186001741 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1408186001742 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1408186001743 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1408186001744 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1408186001745 active site 1408186001746 nucleophile elbow; other site 1408186001747 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1408186001748 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 1408186001749 substrate binding pocket [chemical binding]; other site 1408186001750 membrane-bound complex binding site; other site 1408186001751 hinge residues; other site 1408186001752 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 1408186001753 dimer interface [polypeptide binding]; other site 1408186001754 conserved gate region; other site 1408186001755 putative PBP binding loops; other site 1408186001756 ABC-ATPase subunit interface; other site 1408186001757 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1408186001758 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1408186001759 Walker A/P-loop; other site 1408186001760 ATP binding site [chemical binding]; other site 1408186001761 Q-loop/lid; other site 1408186001762 ABC transporter signature motif; other site 1408186001763 Walker B; other site 1408186001764 D-loop; other site 1408186001765 H-loop/switch region; other site 1408186001766 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1408186001767 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408186001768 Coenzyme A binding pocket [chemical binding]; other site 1408186001769 PBP superfamily domain; Region: PBP_like_2; cl17296 1408186001770 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1408186001771 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 1408186001772 dimer interface [polypeptide binding]; other site 1408186001773 conserved gate region; other site 1408186001774 putative PBP binding loops; other site 1408186001775 ABC-ATPase subunit interface; other site 1408186001776 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1408186001777 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 1408186001778 dimer interface [polypeptide binding]; other site 1408186001779 conserved gate region; other site 1408186001780 putative PBP binding loops; other site 1408186001781 ABC-ATPase subunit interface; other site 1408186001782 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 1408186001783 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1408186001784 Walker A/P-loop; other site 1408186001785 ATP binding site [chemical binding]; other site 1408186001786 Q-loop/lid; other site 1408186001787 ABC transporter signature motif; other site 1408186001788 Walker B; other site 1408186001789 D-loop; other site 1408186001790 H-loop/switch region; other site 1408186001791 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14251 1408186001792 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1408186001793 Walker A/P-loop; other site 1408186001794 ATP binding site [chemical binding]; other site 1408186001795 Q-loop/lid; other site 1408186001796 ABC transporter signature motif; other site 1408186001797 Walker B; other site 1408186001798 D-loop; other site 1408186001799 H-loop/switch region; other site 1408186001800 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1408186001801 PhoU domain; Region: PhoU; pfam01895 1408186001802 PhoU domain; Region: PhoU; pfam01895 1408186001803 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1408186001804 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1408186001805 putative active site [active] 1408186001806 putative NTP binding site [chemical binding]; other site 1408186001807 putative nucleic acid binding site [nucleotide binding]; other site 1408186001808 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1408186001809 Predicted membrane protein [Function unknown]; Region: COG1288 1408186001810 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1408186001811 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1408186001812 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1408186001813 dimerization interface [polypeptide binding]; other site 1408186001814 DPS ferroxidase diiron center [ion binding]; other site 1408186001815 ion pore; other site 1408186001816 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1408186001817 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 1408186001818 substrate binding site [chemical binding]; other site 1408186001819 dimer interface [polypeptide binding]; other site 1408186001820 ATP binding site [chemical binding]; other site 1408186001821 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 1408186001822 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1408186001823 active site 1408186001824 dimer interface [polypeptide binding]; other site 1408186001825 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 1408186001826 active site 1408186001827 tetramer interface [polypeptide binding]; other site 1408186001828 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1408186001829 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1408186001830 DNA-binding site [nucleotide binding]; DNA binding site 1408186001831 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1408186001832 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 1408186001833 active site 1408186001834 zinc binding site [ion binding]; other site 1408186001835 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408186001836 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1408186001837 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1408186001838 Walker A/P-loop; other site 1408186001839 ATP binding site [chemical binding]; other site 1408186001840 Q-loop/lid; other site 1408186001841 ABC transporter signature motif; other site 1408186001842 Walker B; other site 1408186001843 D-loop; other site 1408186001844 H-loop/switch region; other site 1408186001845 putative phosphoketolase; Provisional; Region: PRK05261 1408186001846 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 1408186001847 TPP-binding site; other site 1408186001848 XFP C-terminal domain; Region: XFP_C; pfam09363 1408186001849 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1408186001850 Helix-turn-helix domain; Region: HTH_38; pfam13936 1408186001851 Integrase core domain; Region: rve; pfam00665 1408186001852 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 1408186001853 putative FMN binding site [chemical binding]; other site 1408186001854 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1408186001855 Domain of unknown function DUF21; Region: DUF21; pfam01595 1408186001856 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 1408186001857 Transporter associated domain; Region: CorC_HlyC; smart01091 1408186001858 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408186001859 active site 1408186001860 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1408186001861 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 1408186001862 active site 1408186001863 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1408186001864 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 1408186001865 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1408186001866 ATP binding site [chemical binding]; other site 1408186001867 putative Mg++ binding site [ion binding]; other site 1408186001868 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 1408186001869 nucleotide binding region [chemical binding]; other site 1408186001870 ATP-binding site [chemical binding]; other site 1408186001871 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1408186001872 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1408186001873 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1408186001874 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1408186001875 putative active site [active] 1408186001876 putative NTP binding site [chemical binding]; other site 1408186001877 putative nucleic acid binding site [nucleotide binding]; other site 1408186001878 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1408186001879 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1408186001880 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 1408186001881 active site 1408186001882 homodimer interface [polypeptide binding]; other site 1408186001883 Predicted membrane protein [Function unknown]; Region: COG2246 1408186001884 GtrA-like protein; Region: GtrA; pfam04138 1408186001885 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1408186001886 methionine aminopeptidase; Provisional; Region: PRK08671 1408186001887 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 1408186001888 active site 1408186001889 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1408186001890 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1408186001891 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1408186001892 active site 1408186001893 tetramer interface; other site 1408186001894 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1408186001895 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186001896 Walker A/P-loop; other site 1408186001897 ATP binding site [chemical binding]; other site 1408186001898 Q-loop/lid; other site 1408186001899 ABC transporter signature motif; other site 1408186001900 Walker B; other site 1408186001901 D-loop; other site 1408186001902 H-loop/switch region; other site 1408186001903 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 1408186001904 conserved gate region; other site 1408186001905 ABC-ATPase subunit interface; other site 1408186001906 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1408186001907 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1408186001908 OsmC-like protein; Region: OsmC; pfam02566 1408186001909 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1408186001910 synthetase active site [active] 1408186001911 NTP binding site [chemical binding]; other site 1408186001912 metal binding site [ion binding]; metal-binding site 1408186001913 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1408186001914 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 1408186001915 active site 1408186001916 phosphorylation site [posttranslational modification] 1408186001917 intermolecular recognition site; other site 1408186001918 dimerization interface [polypeptide binding]; other site 1408186001919 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 1408186001920 DNA binding site [nucleotide binding] 1408186001921 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1408186001922 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 1408186001923 dimer interface [polypeptide binding]; other site 1408186001924 phosphorylation site [posttranslational modification] 1408186001925 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 1408186001926 ATP binding site [chemical binding]; other site 1408186001927 Mg2+ binding site [ion binding]; other site 1408186001928 G-X-G motif; other site 1408186001929 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1408186001930 Double zinc ribbon; Region: DZR; pfam12773 1408186001931 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1408186001932 Predicted membrane protein [Function unknown]; Region: COG4640 1408186001933 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 1408186001934 non-specific DNA binding site [nucleotide binding]; other site 1408186001935 salt bridge; other site 1408186001936 sequence-specific DNA binding site [nucleotide binding]; other site 1408186001937 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1408186001938 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 1408186001939 non-specific DNA binding site [nucleotide binding]; other site 1408186001940 salt bridge; other site 1408186001941 sequence-specific DNA binding site [nucleotide binding]; other site 1408186001942 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1408186001943 Double zinc ribbon; Region: DZR; pfam12773 1408186001944 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1408186001945 Double zinc ribbon; Region: DZR; pfam12773 1408186001946 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1408186001947 Double zinc ribbon; Region: DZR; pfam12773 1408186001948 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1408186001949 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 1408186001950 non-specific DNA binding site [nucleotide binding]; other site 1408186001951 salt bridge; other site 1408186001952 sequence-specific DNA binding site [nucleotide binding]; other site 1408186001953 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 1408186001954 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; smart00940 1408186001955 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 1408186001956 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 1408186001957 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 1408186001958 Zn binding site [ion binding]; other site 1408186001959 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1408186001960 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 1408186001961 active site 1408186001962 motif I; other site 1408186001963 motif II; other site 1408186001964 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 1408186001965 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1408186001966 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408186001967 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186001968 Walker A/P-loop; other site 1408186001969 ATP binding site [chemical binding]; other site 1408186001970 Q-loop/lid; other site 1408186001971 ABC transporter signature motif; other site 1408186001972 Walker B; other site 1408186001973 D-loop; other site 1408186001974 H-loop/switch region; other site 1408186001975 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1408186001976 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 1408186001977 glutaminase active site [active] 1408186001978 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 1408186001979 dimer interface [polypeptide binding]; other site 1408186001980 active site 1408186001981 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 1408186001982 dimer interface [polypeptide binding]; other site 1408186001983 active site 1408186001984 Fic/DOC family; Region: Fic; cl00960 1408186001985 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 1408186001986 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1408186001987 putative substrate translocation pore; other site 1408186001988 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 1408186001989 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 1408186001990 DNA binding residues [nucleotide binding] 1408186001991 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1408186001992 putative dimer interface [polypeptide binding]; other site 1408186001993 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 1408186001994 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1408186001995 peptide binding site [polypeptide binding]; other site 1408186001996 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408186001997 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1408186001998 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1408186001999 putative active site [active] 1408186002000 putative NTP binding site [chemical binding]; other site 1408186002001 putative nucleic acid binding site [nucleotide binding]; other site 1408186002002 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1408186002003 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1408186002004 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 1408186002005 trimer interface [polypeptide binding]; other site 1408186002006 active site 1408186002007 G bulge; other site 1408186002008 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1408186002009 Helix-turn-helix domain; Region: HTH_38; pfam13936 1408186002010 Integrase core domain; Region: rve; pfam00665 1408186002011 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1408186002012 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 1408186002013 active site 1408186002014 catalytic site [active] 1408186002015 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1408186002016 nucleotide binding site [chemical binding]; other site 1408186002017 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1408186002018 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1408186002019 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1408186002020 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 1408186002021 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1408186002022 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 1408186002023 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 1408186002024 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 1408186002025 dimer interface [polypeptide binding]; other site 1408186002026 pyridoxal binding site [chemical binding]; other site 1408186002027 ATP binding site [chemical binding]; other site 1408186002028 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 1408186002029 4-oxalocrotonate tautomerase; Provisional; Region: PRK02220 1408186002030 active site 1 [active] 1408186002031 dimer interface [polypeptide binding]; other site 1408186002032 hexamer interface [polypeptide binding]; other site 1408186002033 active site 2 [active] 1408186002034 Phycobilisome protein; Region: Phycobilisome; cl08227 1408186002035 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 1408186002036 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1408186002037 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1408186002038 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1408186002039 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 1408186002040 ArsC family; Region: ArsC; pfam03960 1408186002041 putative ArsC-like catalytic residues; other site 1408186002042 putative TRX-like catalytic residues [active] 1408186002043 ribosomal protein L21 leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408186002044 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1408186002045 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1408186002046 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1408186002047 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1408186002048 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 1408186002049 active site 1408186002050 elongation factor P; Validated; Region: PRK00529 1408186002051 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1408186002052 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 1408186002053 RNA binding site [nucleotide binding]; other site 1408186002054 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 1408186002055 RNA binding site [nucleotide binding]; other site 1408186002056 Asp23 family; Region: Asp23; pfam03780 1408186002057 transcription antitermination factor NusB; Region: nusB; TIGR01951 1408186002058 putative RNA binding site [nucleotide binding]; other site 1408186002059 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 1408186002060 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1408186002061 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1408186002062 homodimer interface [polypeptide binding]; other site 1408186002063 NADP binding site [chemical binding]; other site 1408186002064 substrate binding site [chemical binding]; other site 1408186002065 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1408186002066 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 1408186002067 generic binding surface II; other site 1408186002068 generic binding surface I; other site 1408186002069 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1408186002070 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1408186002071 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1408186002072 substrate binding pocket [chemical binding]; other site 1408186002073 chain length determination region; other site 1408186002074 substrate-Mg2+ binding site; other site 1408186002075 catalytic residues [active] 1408186002076 aspartate-rich region 1; other site 1408186002077 active site lid residues [active] 1408186002078 aspartate-rich region 2; other site 1408186002079 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1408186002080 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 1408186002081 RNA binding surface [nucleotide binding]; other site 1408186002082 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1408186002083 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1408186002084 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1408186002085 Walker A/P-loop; other site 1408186002086 ATP binding site [chemical binding]; other site 1408186002087 Q-loop/lid; other site 1408186002088 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1408186002089 ABC transporter signature motif; other site 1408186002090 Walker B; other site 1408186002091 D-loop; other site 1408186002092 H-loop/switch region; other site 1408186002093 HTH-like domain; Region: HTH_21; pfam13276 1408186002094 Integrase core domain; Region: rve; pfam00665 1408186002095 Integrase core domain; Region: rve_2; pfam13333 1408186002096 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 1408186002097 catalytic site [active] 1408186002098 G-X2-G-X-G-K; other site 1408186002099 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1408186002100 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1408186002101 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 1408186002102 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 1408186002103 ATP binding site [chemical binding]; other site 1408186002104 putative Mg++ binding site [ion binding]; other site 1408186002105 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 1408186002106 nucleotide binding region [chemical binding]; other site 1408186002107 ATP-binding site [chemical binding]; other site 1408186002108 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1408186002109 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1408186002110 putative active site [active] 1408186002111 substrate binding site [chemical binding]; other site 1408186002112 putative cosubstrate binding site; other site 1408186002113 catalytic site [active] 1408186002114 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1408186002115 substrate binding site [chemical binding]; other site 1408186002116 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1408186002117 NusB family; Region: NusB; pfam01029 1408186002118 putative RNA binding site [nucleotide binding]; other site 1408186002119 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 1408186002120 S-adenosylmethionine binding site [chemical binding]; other site 1408186002121 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 1408186002122 Protein phosphatase 2C; Region: PP2C; pfam00481 1408186002123 active site 1408186002124 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1408186002125 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1408186002126 active site 1408186002127 ATP binding site [chemical binding]; other site 1408186002128 substrate binding site [chemical binding]; other site 1408186002129 activation loop (A-loop); other site 1408186002130 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 1408186002131 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 1408186002132 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 1408186002133 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 1408186002134 GTPase RsgA; Reviewed; Region: PRK00098 1408186002135 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 1408186002136 RNA binding site [nucleotide binding]; other site 1408186002137 homodimer interface [polypeptide binding]; other site 1408186002138 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1408186002139 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1408186002140 GTP/Mg2+ binding site [chemical binding]; other site 1408186002141 G4 box; other site 1408186002142 G1 box; other site 1408186002143 Switch I region; other site 1408186002144 G2 box; other site 1408186002145 G3 box; other site 1408186002146 Switch II region; other site 1408186002147 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1408186002148 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 1408186002149 substrate binding site [chemical binding]; other site 1408186002150 hexamer interface [polypeptide binding]; other site 1408186002151 metal binding site [ion binding]; metal-binding site 1408186002152 Thiamine pyrophosphokinase; Region: TPK; cd07995 1408186002153 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 1408186002154 active site 1408186002155 dimerization interface [polypeptide binding]; other site 1408186002156 thiamine binding site [chemical binding]; other site 1408186002157 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1408186002158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1408186002159 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 1408186002160 DAK2 domain; Region: Dak2; pfam02734 1408186002161 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1408186002162 Y-family of DNA polymerases; Region: PolY; cl12025 1408186002163 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 1408186002164 ssDNA binding site; other site 1408186002165 generic binding surface II; other site 1408186002166 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 1408186002167 ATP binding site [chemical binding]; other site 1408186002168 putative Mg++ binding site [ion binding]; other site 1408186002169 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 1408186002170 nucleotide binding region [chemical binding]; other site 1408186002171 ATP-binding site [chemical binding]; other site 1408186002172 putative phosphate acyltransferase; Provisional; Region: PRK05331 1408186002173 acyl carrier protein; Provisional; Region: acpP; PRK00982 1408186002174 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1408186002175 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1408186002176 Walker A/P-loop; other site 1408186002177 ATP binding site [chemical binding]; other site 1408186002178 Q-loop/lid; other site 1408186002179 ABC transporter signature motif; other site 1408186002180 Walker B; other site 1408186002181 D-loop; other site 1408186002182 H-loop/switch region; other site 1408186002183 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1408186002184 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1408186002185 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1408186002186 Walker A/P-loop; other site 1408186002187 ATP binding site [chemical binding]; other site 1408186002188 Q-loop/lid; other site 1408186002189 ABC transporter signature motif; other site 1408186002190 Walker B; other site 1408186002191 D-loop; other site 1408186002192 H-loop/switch region; other site 1408186002193 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1408186002194 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1408186002195 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 1408186002196 dimer interface [polypeptide binding]; other site 1408186002197 conserved gate region; other site 1408186002198 putative PBP binding loops; other site 1408186002199 ABC-ATPase subunit interface; other site 1408186002200 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 1408186002201 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 1408186002202 dimer interface [polypeptide binding]; other site 1408186002203 conserved gate region; other site 1408186002204 ABC-ATPase subunit interface; other site 1408186002205 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 1408186002206 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1408186002207 peptide binding site [polypeptide binding]; other site 1408186002208 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 1408186002209 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1408186002210 peptide binding site [polypeptide binding]; other site 1408186002211 ribonuclease III; Reviewed; Region: rnc; PRK00102 1408186002212 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 1408186002213 dimerization interface [polypeptide binding]; other site 1408186002214 active site 1408186002215 metal binding site [ion binding]; metal-binding site 1408186002216 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 1408186002217 dsRNA binding site [nucleotide binding]; other site 1408186002218 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1408186002219 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1408186002220 Walker A/P-loop; other site 1408186002221 ATP binding site [chemical binding]; other site 1408186002222 Q-loop/lid; other site 1408186002223 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1408186002224 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1408186002225 ABC transporter signature motif; other site 1408186002226 Walker B; other site 1408186002227 D-loop; other site 1408186002228 H-loop/switch region; other site 1408186002229 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1408186002230 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1408186002231 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 1408186002232 P loop; other site 1408186002233 GTP binding site [chemical binding]; other site 1408186002234 Peptidase family C69; Region: Peptidase_C69; pfam03577 1408186002235 putative DNA-binding protein; Validated; Region: PRK00118 1408186002236 signal recognition particle protein; Provisional; Region: PRK10867 1408186002237 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1408186002238 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 1408186002239 P loop; other site 1408186002240 GTP binding site [chemical binding]; other site 1408186002241 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1408186002242 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1408186002243 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1408186002244 RimM N-terminal domain; Region: RimM; pfam01782 1408186002245 PRC-barrel domain; Region: PRC; pfam05239 1408186002246 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1408186002247 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1408186002248 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1408186002249 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 1408186002250 Catalytic site [active] 1408186002251 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 1408186002252 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 1408186002253 active site 1408186002254 Ap4A binding cleft/pocket [chemical binding]; other site 1408186002255 P4 phosphate binding site; other site 1408186002256 nudix motif; other site 1408186002257 putative P2/P3 phosphate binding site [ion binding]; other site 1408186002258 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1408186002259 active site 1408186002260 Fe-S cluster binding site [ion binding]; other site 1408186002261 LexA repressor; Validated; Region: PRK00215 1408186002262 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 1408186002263 putative DNA binding site [nucleotide binding]; other site 1408186002264 putative Zn2+ binding site [ion binding]; other site 1408186002265 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 1408186002266 Catalytic site [active] 1408186002267 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 1408186002268 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 1408186002269 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408186002270 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 1408186002271 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186002272 Walker A/P-loop; other site 1408186002273 ATP binding site [chemical binding]; other site 1408186002274 Q-loop/lid; other site 1408186002275 ABC transporter signature motif; other site 1408186002276 Walker B; other site 1408186002277 D-loop; other site 1408186002278 H-loop/switch region; other site 1408186002279 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1408186002280 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408186002281 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1408186002282 Walker A/P-loop; other site 1408186002283 ATP binding site [chemical binding]; other site 1408186002284 Q-loop/lid; other site 1408186002285 ABC transporter signature motif; other site 1408186002286 Walker B; other site 1408186002287 D-loop; other site 1408186002288 H-loop/switch region; other site 1408186002289 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1408186002290 Transposase; Region: HTH_Tnp_1; cl17663 1408186002291 Helix-turn-helix domain; Region: HTH_28; pfam13518 1408186002292 HTH-like domain; Region: HTH_21; pfam13276 1408186002293 Integrase core domain; Region: rve; pfam00665 1408186002294 Integrase core domain; Region: rve_2; pfam13333 1408186002295 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1408186002296 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 1408186002297 S-adenosylmethionine binding site [chemical binding]; other site 1408186002298 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1408186002299 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1408186002300 putative acyl-acceptor binding pocket; other site 1408186002301 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1408186002302 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 1408186002303 S-adenosylmethionine binding site [chemical binding]; other site 1408186002304 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1408186002305 GIY-YIG motif/motif A; other site 1408186002306 putative active site [active] 1408186002307 putative metal binding site [ion binding]; other site 1408186002308 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 1408186002309 rRNA interaction site [nucleotide binding]; other site 1408186002310 S8 interaction site; other site 1408186002311 putative laminin-1 binding site; other site 1408186002312 elongation factor Ts; Provisional; Region: tsf; PRK09377 1408186002313 UBA/TS-N domain; Region: UBA; pfam00627 1408186002314 Elongation factor TS; Region: EF_TS; pfam00889 1408186002315 Elongation factor TS; Region: EF_TS; pfam00889 1408186002316 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 1408186002317 putative nucleotide binding site [chemical binding]; other site 1408186002318 uridine monophosphate binding site [chemical binding]; other site 1408186002319 homohexameric interface [polypeptide binding]; other site 1408186002320 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1408186002321 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 1408186002322 hinge region; other site 1408186002323 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14830 1408186002324 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1408186002325 catalytic residue [active] 1408186002326 putative FPP diphosphate binding site; other site 1408186002327 putative FPP binding hydrophobic cleft; other site 1408186002328 dimer interface [polypeptide binding]; other site 1408186002329 putative IPP diphosphate binding site; other site 1408186002330 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1408186002331 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1408186002332 RIP metalloprotease RseP; Region: TIGR00054 1408186002333 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 1408186002334 active site 1408186002335 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 1408186002336 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 1408186002337 protein binding site [polypeptide binding]; other site 1408186002338 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 1408186002339 putative substrate binding region [chemical binding]; other site 1408186002340 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1408186002341 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 1408186002342 dimer interface [polypeptide binding]; other site 1408186002343 motif 1; other site 1408186002344 active site 1408186002345 motif 2; other site 1408186002346 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 1408186002347 putative deacylase active site [active] 1408186002348 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 1408186002349 active site 1408186002350 motif 3; other site 1408186002351 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 1408186002352 anticodon binding site; other site 1408186002353 DNA polymerase III PolC; Validated; Region: polC; PRK00448 1408186002354 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 1408186002355 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 1408186002356 generic binding surface II; other site 1408186002357 generic binding surface I; other site 1408186002358 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1408186002359 active site 1408186002360 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1408186002361 active site 1408186002362 catalytic site [active] 1408186002363 substrate binding site [chemical binding]; other site 1408186002364 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 1408186002365 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1408186002366 Sm and related proteins; Region: Sm_like; cl00259 1408186002367 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1408186002368 putative oligomer interface [polypeptide binding]; other site 1408186002369 putative RNA binding site [nucleotide binding]; other site 1408186002370 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1408186002371 NusA N-terminal domain; Region: NusA_N; pfam08529 1408186002372 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 1408186002373 RNA binding site [nucleotide binding]; other site 1408186002374 homodimer interface [polypeptide binding]; other site 1408186002375 NusA-like KH domain; Region: KH_5; pfam13184 1408186002376 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 1408186002377 G-X-X-G motif; other site 1408186002378 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 1408186002379 putative RNA binding cleft [nucleotide binding]; other site 1408186002380 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 1408186002381 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1408186002382 translation initiation factor IF-2; Validated; Region: infB; PRK05306 1408186002383 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1408186002384 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1408186002385 G1 box; other site 1408186002386 putative GEF interaction site [polypeptide binding]; other site 1408186002387 GTP/Mg2+ binding site [chemical binding]; other site 1408186002388 Switch I region; other site 1408186002389 G2 box; other site 1408186002390 G3 box; other site 1408186002391 Switch II region; other site 1408186002392 G4 box; other site 1408186002393 G5 box; other site 1408186002394 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 1408186002395 Translation-initiation factor 2; Region: IF-2; pfam11987 1408186002396 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 1408186002397 ribosome-binding factor A; Provisional; Region: PRK13818 1408186002398 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 1408186002399 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1408186002400 RNA binding site [nucleotide binding]; other site 1408186002401 active site 1408186002402 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1408186002403 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1408186002404 active site 1408186002405 Riboflavin kinase; Region: Flavokinase; smart00904 1408186002406 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1408186002407 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1408186002408 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1408186002409 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1408186002410 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1408186002411 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1408186002412 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1408186002413 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1408186002414 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1408186002415 GrpE; Region: GrpE; pfam01025 1408186002416 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 1408186002417 dimer interface [polypeptide binding]; other site 1408186002418 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1408186002419 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1408186002420 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1408186002421 nucleotide binding site [chemical binding]; other site 1408186002422 NEF interaction site [polypeptide binding]; other site 1408186002423 SBD interface [polypeptide binding]; other site 1408186002424 chaperone protein DnaJ; Provisional; Region: PRK14276 1408186002425 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 1408186002426 HSP70 interaction site [polypeptide binding]; other site 1408186002427 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1408186002428 substrate binding site [polypeptide binding]; other site 1408186002429 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1408186002430 Zn binding sites [ion binding]; other site 1408186002431 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1408186002432 dimer interface [polypeptide binding]; other site 1408186002433 GTP-binding protein LepA; Provisional; Region: PRK05433 1408186002434 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1408186002435 G1 box; other site 1408186002436 putative GEF interaction site [polypeptide binding]; other site 1408186002437 GTP/Mg2+ binding site [chemical binding]; other site 1408186002438 Switch I region; other site 1408186002439 G2 box; other site 1408186002440 G3 box; other site 1408186002441 Switch II region; other site 1408186002442 G4 box; other site 1408186002443 G5 box; other site 1408186002444 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 1408186002445 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 1408186002446 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1408186002447 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 1408186002448 active site 1408186002449 catalytic site [active] 1408186002450 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1408186002451 DHH family; Region: DHH; pfam01368 1408186002452 DHHA1 domain; Region: DHHA1; pfam02272 1408186002453 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 1408186002454 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408186002455 active site 1408186002456 inner membrane transporter YjeM; Provisional; Region: PRK15238 1408186002457 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 1408186002458 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1408186002459 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1408186002460 putative active site [active] 1408186002461 catalytic site [active] 1408186002462 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1408186002463 putative active site [active] 1408186002464 catalytic site [active] 1408186002465 thymidylate synthase; Region: thym_sym; TIGR03284 1408186002466 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 1408186002467 dimerization interface [polypeptide binding]; other site 1408186002468 active site 1408186002469 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1408186002470 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 1408186002471 folate binding site [chemical binding]; other site 1408186002472 NADP+ binding site [chemical binding]; other site 1408186002473 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 1408186002474 putative substrate translocation pore; other site 1408186002475 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1408186002476 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1408186002477 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 1408186002478 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1408186002479 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 1408186002480 motif II; other site 1408186002481 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1408186002482 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1408186002483 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 1408186002484 dimerization interface [polypeptide binding]; other site 1408186002485 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 1408186002486 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1408186002487 active site 1408186002488 enolase; Provisional; Region: eno; PRK00077 1408186002489 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 1408186002490 dimer interface [polypeptide binding]; other site 1408186002491 metal binding site [ion binding]; metal-binding site 1408186002492 substrate binding pocket [chemical binding]; other site 1408186002493 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1408186002494 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186002495 Walker A/P-loop; other site 1408186002496 ATP binding site [chemical binding]; other site 1408186002497 Q-loop/lid; other site 1408186002498 ABC transporter signature motif; other site 1408186002499 Walker B; other site 1408186002500 D-loop; other site 1408186002501 H-loop/switch region; other site 1408186002502 ABC transporter; Region: ABC_tran_2; pfam12848 1408186002503 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1408186002504 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 1408186002505 non-specific DNA binding site [nucleotide binding]; other site 1408186002506 salt bridge; other site 1408186002507 sequence-specific DNA binding site [nucleotide binding]; other site 1408186002508 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; pfam13930 1408186002509 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1408186002510 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408186002511 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1408186002512 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1408186002513 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1408186002514 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1408186002515 Walker A/P-loop; other site 1408186002516 ATP binding site [chemical binding]; other site 1408186002517 Q-loop/lid; other site 1408186002518 ABC transporter signature motif; other site 1408186002519 Walker B; other site 1408186002520 D-loop; other site 1408186002521 H-loop/switch region; other site 1408186002522 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 1408186002523 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 1408186002524 dimer interface [polypeptide binding]; other site 1408186002525 conserved gate region; other site 1408186002526 ABC-ATPase subunit interface; other site 1408186002527 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1408186002528 Class II fumarases; Region: Fumarase_classII; cd01362 1408186002529 active site 1408186002530 tetramer interface [polypeptide binding]; other site 1408186002531 L-aspartate oxidase; Provisional; Region: PRK06175 1408186002532 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 1408186002533 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1408186002534 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1408186002535 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1408186002536 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1408186002537 NAD binding site [chemical binding]; other site 1408186002538 dimer interface [polypeptide binding]; other site 1408186002539 substrate binding site [chemical binding]; other site 1408186002540 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1408186002541 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1408186002542 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 1408186002543 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1408186002544 active site 1408186002545 homodimer interface [polypeptide binding]; other site 1408186002546 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1408186002547 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1408186002548 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 1408186002549 motif II; other site 1408186002550 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 1408186002551 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 1408186002552 putative deacylase active site [active] 1408186002553 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1408186002554 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 1408186002555 S-adenosylmethionine binding site [chemical binding]; other site 1408186002556 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1408186002557 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1408186002558 Zn2+ binding site [ion binding]; other site 1408186002559 Mg2+ binding site [ion binding]; other site 1408186002560 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1408186002561 synthetase active site [active] 1408186002562 NTP binding site [chemical binding]; other site 1408186002563 metal binding site [ion binding]; metal-binding site 1408186002564 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 1408186002565 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1408186002566 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 1408186002567 putative active site [active] 1408186002568 dimerization interface [polypeptide binding]; other site 1408186002569 putative tRNAtyr binding site [nucleotide binding]; other site 1408186002570 histidyl-tRNA synthetase; Region: hisS; TIGR00442 1408186002571 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 1408186002572 dimer interface [polypeptide binding]; other site 1408186002573 motif 1; other site 1408186002574 active site 1408186002575 motif 2; other site 1408186002576 motif 3; other site 1408186002577 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 1408186002578 anticodon binding site; other site 1408186002579 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1408186002580 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 1408186002581 dimer interface [polypeptide binding]; other site 1408186002582 anticodon binding site; other site 1408186002583 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 1408186002584 homodimer interface [polypeptide binding]; other site 1408186002585 motif 1; other site 1408186002586 active site 1408186002587 motif 2; other site 1408186002588 GAD domain; Region: GAD; pfam02938 1408186002589 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 1408186002590 active site 1408186002591 motif 3; other site 1408186002592 aromatic amino acid aminotransferase; Validated; Region: PRK07309 1408186002593 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 1408186002594 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1408186002595 homodimer interface [polypeptide binding]; other site 1408186002596 catalytic residue [active] 1408186002597 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1408186002598 SelR domain; Region: SelR; pfam01641 1408186002599 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 1408186002600 active site 1408186002601 catalytic triad [active] 1408186002602 oxyanion hole [active] 1408186002603 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1408186002604 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1408186002605 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1408186002606 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1408186002607 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1408186002608 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1408186002609 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 1408186002610 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 1408186002611 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1408186002612 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 1408186002613 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1408186002614 Yqey-like protein; Region: YqeY; pfam09424 1408186002615 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1408186002616 PhoH-like protein; Region: PhoH; pfam02562 1408186002617 probable rRNA maturation factor YbeY; Region: TIGR00043 1408186002618 GTPase Era; Reviewed; Region: era; PRK00089 1408186002619 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1408186002620 G1 box; other site 1408186002621 GTP/Mg2+ binding site [chemical binding]; other site 1408186002622 Switch I region; other site 1408186002623 G2 box; other site 1408186002624 Switch II region; other site 1408186002625 G3 box; other site 1408186002626 G4 box; other site 1408186002627 G5 box; other site 1408186002628 Recombination protein O N terminal; Region: RecO_N; pfam11967 1408186002629 DNA repair protein RecO; Region: reco; TIGR00613 1408186002630 Recombination protein O C terminal; Region: RecO_C; pfam02565 1408186002631 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408186002632 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 1408186002633 motif 1; other site 1408186002634 dimer interface [polypeptide binding]; other site 1408186002635 active site 1408186002636 motif 2; other site 1408186002637 motif 3; other site 1408186002638 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1408186002639 DALR anticodon binding domain; Region: DALR_1; pfam05746 1408186002640 DNA primase; Validated; Region: dnaG; PRK05667 1408186002641 CHC2 zinc finger; Region: zf-CHC2; cl17510 1408186002642 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1408186002643 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 1408186002644 active site 1408186002645 metal binding site [ion binding]; metal-binding site 1408186002646 interdomain interaction site; other site 1408186002647 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1408186002648 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 1408186002649 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1408186002650 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1408186002651 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1408186002652 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 1408186002653 DNA binding residues [nucleotide binding] 1408186002654 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 1408186002655 dimer interface [polypeptide binding]; other site 1408186002656 conserved gate region; other site 1408186002657 putative PBP binding loops; other site 1408186002658 ABC-ATPase subunit interface; other site 1408186002659 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 1408186002660 dimer interface [polypeptide binding]; other site 1408186002661 conserved gate region; other site 1408186002662 putative PBP binding loops; other site 1408186002663 ABC-ATPase subunit interface; other site 1408186002664 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1408186002665 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1408186002666 Walker A/P-loop; other site 1408186002667 ATP binding site [chemical binding]; other site 1408186002668 Q-loop/lid; other site 1408186002669 ABC transporter signature motif; other site 1408186002670 Walker B; other site 1408186002671 D-loop; other site 1408186002672 H-loop/switch region; other site 1408186002673 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1408186002674 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 1408186002675 substrate binding pocket [chemical binding]; other site 1408186002676 membrane-bound complex binding site; other site 1408186002677 hinge residues; other site 1408186002678 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 1408186002679 Family of unknown function (DUF633); Region: DUF633; pfam04816 1408186002680 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1408186002681 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1408186002682 peptidase T; Region: peptidase-T; TIGR01882 1408186002683 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1408186002684 metal binding site [ion binding]; metal-binding site 1408186002685 dimer interface [polypeptide binding]; other site 1408186002686 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1408186002687 DNA-binding site [nucleotide binding]; DNA binding site 1408186002688 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1408186002689 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1408186002690 Walker A/P-loop; other site 1408186002691 ATP binding site [chemical binding]; other site 1408186002692 ABC transporter signature motif; other site 1408186002693 Walker B; other site 1408186002694 D-loop; other site 1408186002695 H-loop/switch region; other site 1408186002696 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1408186002697 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 1408186002698 Catalytic site [active] 1408186002699 Clostridial binary toxin B/anthrax toxin PA; Region: Binary_toxB; pfam03495 1408186002700 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1408186002701 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 1408186002702 sequence-specific DNA binding site [nucleotide binding]; other site 1408186002703 salt bridge; other site 1408186002704 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 1408186002705 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 1408186002706 S-adenosylmethionine binding site [chemical binding]; other site 1408186002707 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 1408186002708 hypothetical protein; Provisional; Region: PRK00967 1408186002709 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 1408186002710 Mg++ binding site [ion binding]; other site 1408186002711 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1408186002712 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 1408186002713 putative active site [active] 1408186002714 sugar phosphate phosphatase; Provisional; Region: PRK10513 1408186002715 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 1408186002716 active site 1408186002717 motif I; other site 1408186002718 motif II; other site 1408186002719 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1408186002720 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 1408186002721 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408186002722 active site 1408186002723 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 1408186002724 active site 1408186002725 dimer interface [polypeptide binding]; other site 1408186002726 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 1408186002727 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1408186002728 heterodimer interface [polypeptide binding]; other site 1408186002729 active site 1408186002730 FMN binding site [chemical binding]; other site 1408186002731 homodimer interface [polypeptide binding]; other site 1408186002732 substrate binding site [chemical binding]; other site 1408186002733 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1408186002734 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408186002735 active site 1408186002736 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1408186002737 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1408186002738 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1408186002739 dihydroorotase; Validated; Region: pyrC; PRK09357 1408186002740 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 1408186002741 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 1408186002742 active site 1408186002743 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1408186002744 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 1408186002745 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1408186002746 catalytic site [active] 1408186002747 subunit interface [polypeptide binding]; other site 1408186002748 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1408186002749 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1408186002750 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1408186002751 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1408186002752 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1408186002753 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1408186002754 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 1408186002755 IMP binding site; other site 1408186002756 dimer interface [polypeptide binding]; other site 1408186002757 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1408186002758 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408186002759 active site 1408186002760 Isochorismatase family; Region: Isochorismatase; pfam00857 1408186002761 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 1408186002762 catalytic triad [active] 1408186002763 conserved cis-peptide bond; other site 1408186002764 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1408186002765 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1408186002766 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1408186002767 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 1408186002768 putative ADP-binding pocket [chemical binding]; other site 1408186002769 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 1408186002770 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 1408186002771 active site 1408186002772 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1408186002773 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1408186002774 Walker A/P-loop; other site 1408186002775 ATP binding site [chemical binding]; other site 1408186002776 Q-loop/lid; other site 1408186002777 ABC transporter signature motif; other site 1408186002778 Walker B; other site 1408186002779 D-loop; other site 1408186002780 H-loop/switch region; other site 1408186002781 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1408186002782 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1408186002783 active site 1408186002784 Zn binding site [ion binding]; other site 1408186002785 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 1408186002786 dimer interface [polypeptide binding]; other site 1408186002787 FMN binding site [chemical binding]; other site 1408186002788 glycerate kinase; Region: TIGR00045 1408186002789 HflC protein; Region: hflC; TIGR01932 1408186002790 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 1408186002791 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1408186002792 Helix-turn-helix domain; Region: HTH_38; pfam13936 1408186002793 Integrase core domain; Region: rve; pfam00665 1408186002794 enolase; Provisional; Region: eno; PRK00077 1408186002795 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 1408186002796 dimer interface [polypeptide binding]; other site 1408186002797 metal binding site [ion binding]; metal-binding site 1408186002798 substrate binding pocket [chemical binding]; other site 1408186002799 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1408186002800 Helix-turn-helix domain; Region: HTH_38; pfam13936 1408186002801 Integrase core domain; Region: rve; pfam00665 1408186002802 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 1408186002803 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1408186002804 putative substrate translocation pore; other site 1408186002805 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 1408186002806 FMN binding site [chemical binding]; other site 1408186002807 dimer interface [polypeptide binding]; other site 1408186002808 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408186002809 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1408186002810 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1408186002811 Walker A/P-loop; other site 1408186002812 ATP binding site [chemical binding]; other site 1408186002813 Q-loop/lid; other site 1408186002814 ABC transporter signature motif; other site 1408186002815 Walker B; other site 1408186002816 D-loop; other site 1408186002817 H-loop/switch region; other site 1408186002818 addiction module toxin, RelE/StbE family; Region: RelE_StbE; TIGR02385 1408186002819 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 1408186002820 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1408186002821 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1408186002822 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1408186002823 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408186002824 Coenzyme A binding pocket [chemical binding]; other site 1408186002825 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1408186002826 nucleotide binding site/active site [active] 1408186002827 HIT family signature motif; other site 1408186002828 catalytic residue [active] 1408186002829 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 1408186002830 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 1408186002831 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 1408186002832 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 1408186002833 PLD-like domain; Region: PLDc_2; pfam13091 1408186002834 homodimer interface [polypeptide binding]; other site 1408186002835 putative active site [active] 1408186002836 catalytic site [active] 1408186002837 Putative serine esterase (DUF676); Region: DUF676; pfam05057 1408186002838 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1408186002839 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1408186002840 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1408186002841 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1408186002842 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1408186002843 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 1408186002844 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 1408186002845 nudix motif; other site 1408186002846 hypothetical protein; Provisional; Region: PRK06762 1408186002847 AAA domain; Region: AAA_33; pfam13671 1408186002848 Phosphotransferase enzyme family; Region: APH; pfam01636 1408186002849 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 1408186002850 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 1408186002851 nudix motif; other site 1408186002852 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 1408186002853 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 1408186002854 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 1408186002855 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1408186002856 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1408186002857 homodimer interface [polypeptide binding]; other site 1408186002858 NADP binding site [chemical binding]; other site 1408186002859 substrate binding site [chemical binding]; other site 1408186002860 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1408186002861 Helix-turn-helix domain; Region: HTH_38; pfam13936 1408186002862 Integrase core domain; Region: rve; pfam00665 1408186002863 D-ribose pyranase; Provisional; Region: PRK11797 1408186002864 Sugar transport protein; Region: Sugar_transport; pfam06800 1408186002865 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 1408186002866 H+ Antiporter protein; Region: 2A0121; TIGR00900 1408186002867 putative substrate translocation pore; other site 1408186002868 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408186002869 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1408186002870 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186002871 Walker A/P-loop; other site 1408186002872 ATP binding site [chemical binding]; other site 1408186002873 Q-loop/lid; other site 1408186002874 ABC transporter signature motif; other site 1408186002875 Walker B; other site 1408186002876 D-loop; other site 1408186002877 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 1408186002878 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408186002879 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1408186002880 Walker A/P-loop; other site 1408186002881 ATP binding site [chemical binding]; other site 1408186002882 Q-loop/lid; other site 1408186002883 ABC transporter signature motif; other site 1408186002884 Walker B; other site 1408186002885 D-loop; other site 1408186002886 H-loop/switch region; other site 1408186002887 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1408186002888 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 1408186002889 homotetramer interface [polypeptide binding]; other site 1408186002890 FMN binding site [chemical binding]; other site 1408186002891 homodimer contacts [polypeptide binding]; other site 1408186002892 putative active site [active] 1408186002893 putative substrate binding site [chemical binding]; other site 1408186002894 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 1408186002895 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1408186002896 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1408186002897 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 1408186002898 diphosphomevalonate decarboxylase; Region: PLN02407 1408186002899 mevalonate kinase; Region: mevalon_kin; TIGR00549 1408186002900 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1408186002901 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 1408186002902 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1408186002903 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 1408186002904 Part of AAA domain; Region: AAA_19; pfam13245 1408186002905 Family description; Region: UvrD_C_2; pfam13538 1408186002906 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1408186002907 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 1408186002908 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1408186002909 active site 1408186002910 catalytic site [active] 1408186002911 substrate binding site [chemical binding]; other site 1408186002912 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 1408186002913 ATP binding site [chemical binding]; other site 1408186002914 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1408186002915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 1408186002916 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1408186002917 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 1408186002918 putative dimer interface [polypeptide binding]; other site 1408186002919 putative anticodon binding site; other site 1408186002920 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 1408186002921 homodimer interface [polypeptide binding]; other site 1408186002922 motif 1; other site 1408186002923 motif 2; other site 1408186002924 active site 1408186002925 motif 3; other site 1408186002926 Helix-turn-helix domain; Region: HTH_36; pfam13730 1408186002927 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1408186002928 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1408186002929 endonuclease III; Region: ENDO3c; smart00478 1408186002930 minor groove reading motif; other site 1408186002931 helix-hairpin-helix signature motif; other site 1408186002932 substrate binding pocket [chemical binding]; other site 1408186002933 active site 1408186002934 HTH-like domain; Region: HTH_21; pfam13276 1408186002935 Integrase core domain; Region: rve; pfam00665 1408186002936 Integrase core domain; Region: rve_2; pfam13333 1408186002937 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1408186002938 Transglycosylase; Region: Transgly; pfam00912 1408186002939 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1408186002940 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 1408186002941 hypothetical protein; Provisional; Region: PRK13660 1408186002942 DivIVA protein; Region: DivIVA; pfam05103 1408186002943 DivIVA domain; Region: DivI1A_domain; TIGR03544 1408186002944 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1408186002945 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1408186002946 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 1408186002947 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1408186002948 EDD domain protein, DegV family; Region: DegV; TIGR00762 1408186002949 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1408186002950 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1408186002951 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 1408186002952 Potassium binding sites [ion binding]; other site 1408186002953 Cesium cation binding sites [ion binding]; other site 1408186002954 lipoprotein signal peptidase; Provisional; Region: PRK14797 1408186002955 lipoprotein signal peptidase; Provisional; Region: PRK14787 1408186002956 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1408186002957 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 1408186002958 RNA binding surface [nucleotide binding]; other site 1408186002959 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1408186002960 active site 1408186002961 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 1408186002962 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1408186002963 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1408186002964 conserved cys residue [active] 1408186002965 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK12815 1408186002966 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1408186002967 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1408186002968 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1408186002969 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1408186002970 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1408186002971 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 1408186002972 IMP binding site; other site 1408186002973 dimer interface [polypeptide binding]; other site 1408186002974 interdomain contacts; other site 1408186002975 partial ornithine binding site; other site 1408186002976 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1408186002977 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1408186002978 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1408186002979 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 1408186002980 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1408186002981 MarR family; Region: MarR_2; pfam12802 1408186002982 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1408186002983 EDD domain protein, DegV family; Region: DegV; TIGR00762 1408186002984 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1408186002985 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1408186002986 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1408186002987 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 1408186002988 dimerization interface [polypeptide binding]; other site 1408186002989 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 1408186002990 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 1408186002991 active site 1408186002992 DNA binding site [nucleotide binding] 1408186002993 Int/Topo IB signature motif; other site 1408186002994 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1408186002995 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 1408186002996 active site 1408186002997 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1408186002998 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 1408186002999 ATP binding site [chemical binding]; other site 1408186003000 putative Mg++ binding site [ion binding]; other site 1408186003001 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 1408186003002 nucleotide binding region [chemical binding]; other site 1408186003003 ATP-binding site [chemical binding]; other site 1408186003004 RQC domain; Region: RQC; pfam09382 1408186003005 HRDC domain; Region: HRDC; pfam00570 1408186003006 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 1408186003007 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 1408186003008 DHHA2 domain; Region: DHHA2; pfam02833 1408186003009 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 1408186003010 putative DNA binding site [nucleotide binding]; other site 1408186003011 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1408186003012 putative Zn2+ binding site [ion binding]; other site 1408186003013 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 1408186003014 dimerization interface [polypeptide binding]; other site 1408186003015 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1408186003016 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 1408186003017 CAP-like domain; other site 1408186003018 active site 1408186003019 primary dimer interface [polypeptide binding]; other site 1408186003020 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1408186003021 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1408186003022 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 1408186003023 Mg2+ binding site [ion binding]; other site 1408186003024 G-X-G motif; other site 1408186003025 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 1408186003026 anchoring element; other site 1408186003027 dimer interface [polypeptide binding]; other site 1408186003028 ATP binding site [chemical binding]; other site 1408186003029 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 1408186003030 active site 1408186003031 putative metal-binding site [ion binding]; other site 1408186003032 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1408186003033 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 1408186003034 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1408186003035 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1408186003036 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1408186003037 Amidohydrolase; Region: Amidohydro_2; pfam04909 1408186003038 recombination factor protein RarA; Reviewed; Region: PRK13342 1408186003039 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 1408186003040 Walker A motif; other site 1408186003041 ATP binding site [chemical binding]; other site 1408186003042 Walker B motif; other site 1408186003043 arginine finger; other site 1408186003044 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1408186003045 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 1408186003046 dimer interface [polypeptide binding]; other site 1408186003047 catalytic triad [active] 1408186003048 peroxidatic and resolving cysteines [active] 1408186003049 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1408186003050 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186003051 Walker A/P-loop; other site 1408186003052 ATP binding site [chemical binding]; other site 1408186003053 Q-loop/lid; other site 1408186003054 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1408186003055 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186003056 ABC transporter signature motif; other site 1408186003057 Walker B; other site 1408186003058 D-loop; other site 1408186003059 H-loop/switch region; other site 1408186003060 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186003061 AAA domain; Region: AAA_21; pfam13304 1408186003062 Walker A/P-loop; other site 1408186003063 ATP binding site [chemical binding]; other site 1408186003064 Q-loop/lid; other site 1408186003065 ABC transporter signature motif; other site 1408186003066 Walker B; other site 1408186003067 D-loop; other site 1408186003068 H-loop/switch region; other site 1408186003069 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 1408186003070 Walker A motif; other site 1408186003071 ATP binding site [chemical binding]; other site 1408186003072 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 1408186003073 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 1408186003074 active site 1408186003075 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1408186003076 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 1408186003077 S-adenosylmethionine binding site [chemical binding]; other site 1408186003078 manganese transport protein MntH; Reviewed; Region: PRK00701 1408186003079 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1408186003080 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1408186003081 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1408186003082 FeS assembly protein SufB; Region: sufB; TIGR01980 1408186003083 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1408186003084 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1408186003085 trimerization site [polypeptide binding]; other site 1408186003086 active site 1408186003087 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1408186003088 Helix-turn-helix domain; Region: HTH_38; pfam13936 1408186003089 Integrase core domain; Region: rve; pfam00665 1408186003090 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1408186003091 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 1408186003092 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1408186003093 catalytic residue [active] 1408186003094 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1408186003095 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1408186003096 FeS assembly protein SufD; Region: sufD; TIGR01981 1408186003097 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1408186003098 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1408186003099 Walker A/P-loop; other site 1408186003100 ATP binding site [chemical binding]; other site 1408186003101 Q-loop/lid; other site 1408186003102 ABC transporter signature motif; other site 1408186003103 Walker B; other site 1408186003104 D-loop; other site 1408186003105 H-loop/switch region; other site 1408186003106 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1408186003107 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408186003108 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 1408186003109 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1408186003110 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1408186003111 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1408186003112 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 1408186003113 dimer interface [polypeptide binding]; other site 1408186003114 phosphorylation site [posttranslational modification] 1408186003115 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 1408186003116 ATP binding site [chemical binding]; other site 1408186003117 Mg2+ binding site [ion binding]; other site 1408186003118 G-X-G motif; other site 1408186003119 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1408186003120 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 1408186003121 active site 1408186003122 phosphorylation site [posttranslational modification] 1408186003123 intermolecular recognition site; other site 1408186003124 dimerization interface [polypeptide binding]; other site 1408186003125 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 1408186003126 DNA binding site [nucleotide binding] 1408186003127 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1408186003128 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 1408186003129 motif II; other site 1408186003130 Protein of unknown function (DUF1211); Region: DUF1211; pfam06736 1408186003131 LytTr DNA-binding domain; Region: LytTR; smart00850 1408186003132 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 1408186003133 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 1408186003134 acetolactate synthase; Reviewed; Region: PRK08617 1408186003135 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1408186003136 PYR/PP interface [polypeptide binding]; other site 1408186003137 dimer interface [polypeptide binding]; other site 1408186003138 TPP binding site [chemical binding]; other site 1408186003139 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1408186003140 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 1408186003141 TPP-binding site [chemical binding]; other site 1408186003142 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1408186003143 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1408186003144 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1408186003145 ABC transporter; Region: ABC_tran_2; pfam12848 1408186003146 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1408186003147 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1408186003148 Helix-turn-helix domain; Region: HTH_38; pfam13936 1408186003149 Integrase core domain; Region: rve; pfam00665 1408186003150 Predicted membrane protein [Function unknown]; Region: COG2855 1408186003151 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1408186003152 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 1408186003153 dimerization interface [polypeptide binding]; other site 1408186003154 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 1408186003155 active site 1408186003156 catalytic residues [active] 1408186003157 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1408186003158 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 1408186003159 Walker A motif; other site 1408186003160 ATP binding site [chemical binding]; other site 1408186003161 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 1408186003162 Walker B motif; other site 1408186003163 arginine finger; other site 1408186003164 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1408186003165 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 1408186003166 active site 1408186003167 HslU subunit interaction site [polypeptide binding]; other site 1408186003168 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 1408186003169 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1408186003170 active site 1408186003171 Int/Topo IB signature motif; other site 1408186003172 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1408186003173 Glucose inhibited division protein A; Region: GIDA; pfam01134 1408186003174 DNA topoisomerase I; Validated; Region: PRK05582 1408186003175 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 1408186003176 active site 1408186003177 interdomain interaction site; other site 1408186003178 putative metal-binding site [ion binding]; other site 1408186003179 nucleotide binding site [chemical binding]; other site 1408186003180 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 1408186003181 domain I; other site 1408186003182 DNA binding groove [nucleotide binding] 1408186003183 phosphate binding site [ion binding]; other site 1408186003184 domain II; other site 1408186003185 domain III; other site 1408186003186 nucleotide binding site [chemical binding]; other site 1408186003187 catalytic site [active] 1408186003188 domain IV; other site 1408186003189 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1408186003190 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1408186003191 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1408186003192 DNA protecting protein DprA; Region: dprA; TIGR00732 1408186003193 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1408186003194 RNA/DNA hybrid binding site [nucleotide binding]; other site 1408186003195 active site 1408186003196 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 1408186003197 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1408186003198 GTP/Mg2+ binding site [chemical binding]; other site 1408186003199 G4 box; other site 1408186003200 G5 box; other site 1408186003201 G1 box; other site 1408186003202 Switch I region; other site 1408186003203 G2 box; other site 1408186003204 G3 box; other site 1408186003205 Switch II region; other site 1408186003206 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1408186003207 C-terminal peptidase (prc); Region: prc; TIGR00225 1408186003208 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 1408186003209 protein binding site [polypeptide binding]; other site 1408186003210 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1408186003211 Catalytic dyad [active] 1408186003212 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1408186003213 hypothetical protein; Provisional; Region: PRK13672 1408186003214 EDD domain protein, DegV family; Region: DegV; TIGR00762 1408186003215 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1408186003216 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1408186003217 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1408186003218 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 1408186003219 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1408186003220 active site 1408186003221 NTP binding site [chemical binding]; other site 1408186003222 metal binding triad [ion binding]; metal-binding site 1408186003223 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1408186003224 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1408186003225 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1408186003226 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1408186003227 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1408186003228 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1408186003229 Ion transport protein; Region: Ion_trans; pfam00520 1408186003230 Ion channel; Region: Ion_trans_2; pfam07885 1408186003231 Nnf1; Region: Nnf1; pfam03980 1408186003232 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 1408186003233 GIY-YIG domain of uncharacterized bacterial protein structurally related to COG3410; Region: GIY-YIG_COG3410; cd10439 1408186003234 GIY-YIG motif/motif A; other site 1408186003235 putative active site [active] 1408186003236 putative metal binding site [ion binding]; other site 1408186003237 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 1408186003238 Uncharacterized conserved protein [Function unknown]; Region: COG3410 1408186003239 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 1408186003240 binding surface 1408186003241 TPR motif; other site 1408186003242 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 1408186003243 binding surface 1408186003244 TPR motif; other site 1408186003245 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 1408186003246 binding surface 1408186003247 TPR motif; other site 1408186003248 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 1408186003249 IHF dimer interface [polypeptide binding]; other site 1408186003250 IHF - DNA interface [nucleotide binding]; other site 1408186003251 GTP-binding protein Der; Reviewed; Region: PRK00093 1408186003252 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1408186003253 G1 box; other site 1408186003254 GTP/Mg2+ binding site [chemical binding]; other site 1408186003255 Switch I region; other site 1408186003256 G2 box; other site 1408186003257 Switch II region; other site 1408186003258 G3 box; other site 1408186003259 G4 box; other site 1408186003260 G5 box; other site 1408186003261 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1408186003262 G1 box; other site 1408186003263 GTP/Mg2+ binding site [chemical binding]; other site 1408186003264 Switch I region; other site 1408186003265 G2 box; other site 1408186003266 G3 box; other site 1408186003267 Switch II region; other site 1408186003268 G4 box; other site 1408186003269 G5 box; other site 1408186003270 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 1408186003271 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 1408186003272 RNA binding site [nucleotide binding]; other site 1408186003273 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 1408186003274 RNA binding site [nucleotide binding]; other site 1408186003275 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 1408186003276 RNA binding site [nucleotide binding]; other site 1408186003277 cytidylate kinase; Provisional; Region: cmk; PRK00023 1408186003278 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 1408186003279 CMP-binding site; other site 1408186003280 The sites determining sugar specificity; other site 1408186003281 Predicted membrane protein [Function unknown]; Region: COG3601 1408186003282 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1408186003283 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1408186003284 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1408186003285 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 1408186003286 RNA binding surface [nucleotide binding]; other site 1408186003287 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1408186003288 active site 1408186003289 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 1408186003290 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 1408186003291 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 1408186003292 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1408186003293 active site 1408186003294 Int/Topo IB signature motif; other site 1408186003295 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1408186003296 S1 domain; Region: S1_2; pfam13509 1408186003297 pyruvate kinase; Provisional; Region: PRK06354 1408186003298 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 1408186003299 domain interfaces; other site 1408186003300 active site 1408186003301 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 1408186003302 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 1408186003303 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1408186003304 active site 1408186003305 ADP/pyrophosphate binding site [chemical binding]; other site 1408186003306 dimerization interface [polypeptide binding]; other site 1408186003307 allosteric effector site; other site 1408186003308 fructose-1,6-bisphosphate binding site; other site 1408186003309 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 1408186003310 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1408186003311 active site 1408186003312 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 1408186003313 generic binding surface II; other site 1408186003314 generic binding surface I; other site 1408186003315 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 1408186003316 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1408186003317 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1408186003318 active site 1408186003319 metal binding site [ion binding]; metal-binding site 1408186003320 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1408186003321 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1408186003322 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1408186003323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1408186003324 NAD(P) binding site [chemical binding]; other site 1408186003325 active site 1408186003326 ribonuclease Z; Region: RNase_Z; TIGR02651 1408186003327 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1408186003328 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 1408186003329 catalytic triad [active] 1408186003330 catalytic triad [active] 1408186003331 oxyanion hole [active] 1408186003332 GTPase CgtA; Reviewed; Region: obgE; PRK12297 1408186003333 GTP1/OBG; Region: GTP1_OBG; pfam01018 1408186003334 Obg GTPase; Region: Obg; cd01898 1408186003335 G1 box; other site 1408186003336 GTP/Mg2+ binding site [chemical binding]; other site 1408186003337 Switch I region; other site 1408186003338 G2 box; other site 1408186003339 G3 box; other site 1408186003340 Switch II region; other site 1408186003341 G4 box; other site 1408186003342 G5 box; other site 1408186003343 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1408186003344 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1408186003345 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1408186003346 GIY-YIG motif/motif A; other site 1408186003347 active site 1408186003348 catalytic site [active] 1408186003349 putative DNA binding site [nucleotide binding]; other site 1408186003350 metal binding site [ion binding]; metal-binding site 1408186003351 UvrB/uvrC motif; Region: UVR; pfam02151 1408186003352 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1408186003353 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 1408186003354 DNA binding site [nucleotide binding] 1408186003355 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 1408186003356 active site 1408186003357 dimerization interface [polypeptide binding]; other site 1408186003358 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1408186003359 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1408186003360 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 1408186003361 Amino acid permease; Region: AA_permease_2; pfam13520 1408186003362 Rib/alpha-like repeat; Region: Rib; pfam08428 1408186003363 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 1408186003364 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 1408186003365 putative active site [active] 1408186003366 nucleotide binding site [chemical binding]; other site 1408186003367 nudix motif; other site 1408186003368 putative metal binding site [ion binding]; other site 1408186003369 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1408186003370 Helix-turn-helix domain; Region: HTH_38; pfam13936 1408186003371 Integrase core domain; Region: rve; pfam00665 1408186003372 SIR2-like domain; Region: SIR2_2; pfam13289 1408186003373 Protein of unknown function (DUF1032); Region: DUF1032; pfam06278 1408186003374 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1408186003375 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 1408186003376 putative active site [active] 1408186003377 putative NTP binding site [chemical binding]; other site 1408186003378 putative nucleic acid binding site [nucleotide binding]; other site 1408186003379 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1408186003380 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1408186003381 NADP binding site [chemical binding]; other site 1408186003382 active site 1408186003383 putative substrate binding site [chemical binding]; other site 1408186003384 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 1408186003385 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1408186003386 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1408186003387 substrate binding site; other site 1408186003388 tetramer interface; other site 1408186003389 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1408186003390 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1408186003391 NAD binding site [chemical binding]; other site 1408186003392 substrate binding site [chemical binding]; other site 1408186003393 homodimer interface [polypeptide binding]; other site 1408186003394 active site 1408186003395 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1408186003396 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1408186003397 DNA binding residues [nucleotide binding] 1408186003398 dimer interface [polypeptide binding]; other site 1408186003399 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 1408186003400 S-adenosylmethionine binding site [chemical binding]; other site 1408186003401 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1408186003402 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1408186003403 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 1408186003404 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1408186003405 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1408186003406 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1408186003407 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1408186003408 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 1408186003409 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1408186003410 putative trimer interface [polypeptide binding]; other site 1408186003411 putative CoA binding site [chemical binding]; other site 1408186003412 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 1408186003413 trimer interface [polypeptide binding]; other site 1408186003414 active site 1408186003415 substrate binding site [chemical binding]; other site 1408186003416 CoA binding site [chemical binding]; other site 1408186003417 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1408186003418 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 1408186003419 active site 1408186003420 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1408186003421 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 1408186003422 putative ADP-binding pocket [chemical binding]; other site 1408186003423 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1408186003424 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1408186003425 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 1408186003426 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1408186003427 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 1408186003428 Chain length determinant protein; Region: Wzz; cl15801 1408186003429 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 1408186003430 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1408186003431 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1408186003432 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1408186003433 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1408186003434 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1408186003435 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 1408186003436 catalytic residues [active] 1408186003437 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1408186003438 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 1408186003439 catalytic residues [active] 1408186003440 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1408186003441 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1408186003442 active site 1408186003443 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1408186003444 G1 box; other site 1408186003445 GTP/Mg2+ binding site [chemical binding]; other site 1408186003446 Switch I region; other site 1408186003447 G2 box; other site 1408186003448 G3 box; other site 1408186003449 Switch II region; other site 1408186003450 G4 box; other site 1408186003451 G5 box; other site 1408186003452 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1408186003453 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1408186003454 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 1408186003455 Walker A motif; other site 1408186003456 ATP binding site [chemical binding]; other site 1408186003457 Walker B motif; other site 1408186003458 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1408186003459 trigger factor; Provisional; Region: tig; PRK01490 1408186003460 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1408186003461 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1408186003462 elongation factor Tu; Reviewed; Region: PRK00049 1408186003463 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1408186003464 G1 box; other site 1408186003465 GEF interaction site [polypeptide binding]; other site 1408186003466 GTP/Mg2+ binding site [chemical binding]; other site 1408186003467 Switch I region; other site 1408186003468 G2 box; other site 1408186003469 G3 box; other site 1408186003470 Switch II region; other site 1408186003471 G4 box; other site 1408186003472 G5 box; other site 1408186003473 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 1408186003474 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 1408186003475 Antibiotic Binding Site [chemical binding]; other site 1408186003476 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1408186003477 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1408186003478 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1408186003479 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 1408186003480 16S/18S rRNA binding site [nucleotide binding]; other site 1408186003481 S13e-L30e interaction site [polypeptide binding]; other site 1408186003482 25S rRNA binding site [nucleotide binding]; other site 1408186003483 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1408186003484 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1408186003485 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1408186003486 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1408186003487 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1408186003488 Competence protein; Region: Competence; pfam03772 1408186003489 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1408186003490 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1408186003491 SLBB domain; Region: SLBB; pfam10531 1408186003492 comEA protein; Region: comE; TIGR01259 1408186003493 Helix-hairpin-helix motif; Region: HHH; pfam00633 1408186003494 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 1408186003495 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 1408186003496 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1408186003497 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1408186003498 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1408186003499 active site 1408186003500 (T/H)XGH motif; other site 1408186003501 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1408186003502 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 1408186003503 S-adenosylmethionine binding site [chemical binding]; other site 1408186003504 cell division protein FtsW; Region: ftsW; TIGR02614 1408186003505 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1408186003506 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1408186003507 putative GEF interaction site [polypeptide binding]; other site 1408186003508 G1 box; other site 1408186003509 GTP/Mg2+ binding site [chemical binding]; other site 1408186003510 Switch I region; other site 1408186003511 G2 box; other site 1408186003512 G3 box; other site 1408186003513 Switch II region; other site 1408186003514 G4 box; other site 1408186003515 G5 box; other site 1408186003516 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 1408186003517 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 1408186003518 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 1408186003519 active site 1408186003520 catalytic residues [active] 1408186003521 metal binding site [ion binding]; metal-binding site 1408186003522 Protein of unknown function (DUF1447); Region: DUF1447; pfam07288 1408186003523 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1408186003524 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1408186003525 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1408186003526 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1408186003527 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1408186003528 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1408186003529 AAA domain; Region: AAA_30; pfam13604 1408186003530 Family description; Region: UvrD_C_2; pfam13538 1408186003531 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 1408186003532 binding surface 1408186003533 TPR motif; other site 1408186003534 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 1408186003535 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 1408186003536 binding surface 1408186003537 TPR motif; other site 1408186003538 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 1408186003539 catalytic core [active] 1408186003540 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1408186003541 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 1408186003542 Putative amino acid metabolism; Region: DUF1831; pfam08866 1408186003543 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1408186003544 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1408186003545 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1408186003546 catalytic residue [active] 1408186003547 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1408186003548 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1408186003549 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 1408186003550 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 1408186003551 dimer interface [polypeptide binding]; other site 1408186003552 ADP-ribose binding site [chemical binding]; other site 1408186003553 active site 1408186003554 nudix motif; other site 1408186003555 metal binding site [ion binding]; metal-binding site 1408186003556 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 1408186003557 DNA-binding site [nucleotide binding]; DNA binding site 1408186003558 RNA-binding motif; other site 1408186003559 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1408186003560 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1408186003561 active site 1408186003562 HIGH motif; other site 1408186003563 nucleotide binding site [chemical binding]; other site 1408186003564 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1408186003565 active site 1408186003566 KMSKS motif; other site 1408186003567 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1408186003568 tRNA binding surface [nucleotide binding]; other site 1408186003569 anticodon binding site; other site 1408186003570 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1408186003571 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408186003572 DivIVA domain; Region: DivI1A_domain; TIGR03544 1408186003573 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 1408186003574 V-type ATP synthase subunit E; Provisional; Region: PRK03963; cl17074 1408186003575 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 1408186003576 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 1408186003577 RNA binding surface [nucleotide binding]; other site 1408186003578 YGGT family; Region: YGGT; pfam02325 1408186003579 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 1408186003580 cell division protein FtsZ; Validated; Region: PRK09330 1408186003581 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 1408186003582 nucleotide binding site [chemical binding]; other site 1408186003583 SulA interaction site; other site 1408186003584 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1408186003585 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1408186003586 nucleotide binding site [chemical binding]; other site 1408186003587 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 1408186003588 Cell division protein FtsA; Region: FtsA; pfam14450 1408186003589 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1408186003590 Cell division protein FtsQ; Region: FtsQ; pfam03799 1408186003591 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1408186003592 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 1408186003593 active site 1408186003594 homodimer interface [polypeptide binding]; other site 1408186003595 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 1408186003596 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1408186003597 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1408186003598 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1408186003599 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 1408186003600 Mg++ binding site [ion binding]; other site 1408186003601 putative catalytic motif [active] 1408186003602 putative substrate binding site [chemical binding]; other site 1408186003603 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1408186003604 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1408186003605 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1408186003606 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 1408186003607 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 1408186003608 Cell division protein FtsL; Region: FtsL; cl11433 1408186003609 MraW methylase family; Region: Methyltransf_5; pfam01795 1408186003610 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1408186003611 cell division protein MraZ; Reviewed; Region: PRK00326 1408186003612 MraZ protein; Region: MraZ; pfam02381 1408186003613 MraZ protein; Region: MraZ; pfam02381 1408186003614 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 1408186003615 Protein of unknown function (DUF4044); Region: DUF4044; pfam13253 1408186003616 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 1408186003617 rod shape-determining protein MreC; Provisional; Region: PRK13922 1408186003618 rod shape-determining protein MreC; Region: MreC; pfam04085 1408186003619 rod shape-determining protein MreB; Provisional; Region: PRK13927 1408186003620 MreB and similar proteins; Region: MreB_like; cd10225 1408186003621 nucleotide binding site [chemical binding]; other site 1408186003622 Mg binding site [ion binding]; other site 1408186003623 putative protofilament interaction site [polypeptide binding]; other site 1408186003624 RodZ interaction site [polypeptide binding]; other site 1408186003625 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1408186003626 MPN+ (JAMM) motif; other site 1408186003627 Zinc-binding site [ion binding]; other site 1408186003628 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 1408186003629 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 1408186003630 motif II; other site 1408186003631 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1408186003632 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1408186003633 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1408186003634 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1408186003635 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1408186003636 active site 1408186003637 HIGH motif; other site 1408186003638 nucleotide binding site [chemical binding]; other site 1408186003639 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1408186003640 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1408186003641 active site 1408186003642 KMSKS motif; other site 1408186003643 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1408186003644 tRNA binding surface [nucleotide binding]; other site 1408186003645 anticodon binding site; other site 1408186003646 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1408186003647 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408186003648 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1408186003649 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1408186003650 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1408186003651 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1408186003652 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 1408186003653 motif II; other site 1408186003654 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1408186003655 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1408186003656 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1408186003657 active site 1408186003658 catalytic site [active] 1408186003659 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1408186003660 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 1408186003661 RNA binding surface [nucleotide binding]; other site 1408186003662 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1408186003663 active site 1408186003664 uracil binding [chemical binding]; other site 1408186003665 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 1408186003666 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1408186003667 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 1408186003668 Ligand Binding Site [chemical binding]; other site 1408186003669 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1408186003670 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1408186003671 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1408186003672 catalytic residue [active] 1408186003673 Septation ring formation regulator, EzrA; Region: EzrA; pfam06160 1408186003674 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1408186003675 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1408186003676 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 1408186003677 RNA binding surface [nucleotide binding]; other site 1408186003678 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 1408186003679 recombination factor protein RarA; Reviewed; Region: PRK13342 1408186003680 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 1408186003681 Walker A motif; other site 1408186003682 ATP binding site [chemical binding]; other site 1408186003683 Walker B motif; other site 1408186003684 arginine finger; other site 1408186003685 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1408186003686 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 1408186003687 Ligand Binding Site [chemical binding]; other site 1408186003688 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1408186003689 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 1408186003690 hypothetical protein; Provisional; Region: PRK14379 1408186003691 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 1408186003692 rod shape-determining protein MreB; Provisional; Region: PRK13930 1408186003693 MreB and similar proteins; Region: MreB_like; cd10225 1408186003694 nucleotide binding site [chemical binding]; other site 1408186003695 Mg binding site [ion binding]; other site 1408186003696 putative protofilament interaction site [polypeptide binding]; other site 1408186003697 RodZ interaction site [polypeptide binding]; other site 1408186003698 Protein of unknown function (DUF1146); Region: DUF1146; pfam06612 1408186003699 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1408186003700 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1408186003701 gamma subunit interface [polypeptide binding]; other site 1408186003702 epsilon subunit interface [polypeptide binding]; other site 1408186003703 LBP interface [polypeptide binding]; other site 1408186003704 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1408186003705 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1408186003706 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 1408186003707 alpha subunit interaction interface [polypeptide binding]; other site 1408186003708 Walker A motif; other site 1408186003709 ATP binding site [chemical binding]; other site 1408186003710 Walker B motif; other site 1408186003711 inhibitor binding site; inhibition site 1408186003712 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1408186003713 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1408186003714 core domain interface [polypeptide binding]; other site 1408186003715 delta subunit interface [polypeptide binding]; other site 1408186003716 epsilon subunit interface [polypeptide binding]; other site 1408186003717 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1408186003718 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1408186003719 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 1408186003720 beta subunit interaction interface [polypeptide binding]; other site 1408186003721 Walker A motif; other site 1408186003722 ATP binding site [chemical binding]; other site 1408186003723 Walker B motif; other site 1408186003724 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1408186003725 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1408186003726 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1408186003727 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1408186003728 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1408186003729 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1408186003730 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1408186003731 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408186003732 active site 1408186003733 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1408186003734 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1408186003735 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1408186003736 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 1408186003737 S-adenosylmethionine binding site [chemical binding]; other site 1408186003738 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1408186003739 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1408186003740 RF-1 domain; Region: RF-1; pfam00472 1408186003741 thymidine kinase; Provisional; Region: PRK04296 1408186003742 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 1408186003743 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1408186003744 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1408186003745 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1408186003746 Beta-lactamase; Region: Beta-lactamase; pfam00144 1408186003747 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 1408186003748 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1408186003749 putative substrate translocation pore; other site 1408186003750 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 1408186003751 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 1408186003752 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 1408186003753 active site 1408186003754 dimer interface [polypeptide binding]; other site 1408186003755 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 1408186003756 dimer interface [polypeptide binding]; other site 1408186003757 active site 1408186003758 VanZ like family; Region: VanZ; cl01971 1408186003759 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1408186003760 Sulfatase; Region: Sulfatase; pfam00884 1408186003761 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1408186003762 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 1408186003763 dimerization interface [polypeptide binding]; other site 1408186003764 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 1408186003765 dimer interface [polypeptide binding]; other site 1408186003766 phosphorylation site [posttranslational modification] 1408186003767 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 1408186003768 ATP binding site [chemical binding]; other site 1408186003769 Mg2+ binding site [ion binding]; other site 1408186003770 G-X-G motif; other site 1408186003771 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1408186003772 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 1408186003773 active site 1408186003774 phosphorylation site [posttranslational modification] 1408186003775 intermolecular recognition site; other site 1408186003776 dimerization interface [polypeptide binding]; other site 1408186003777 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 1408186003778 DNA binding site [nucleotide binding] 1408186003779 SdpI/YhfL protein family; Region: SdpI; pfam13630 1408186003780 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1408186003781 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 1408186003782 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1408186003783 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 1408186003784 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1408186003785 homodimer interface [polypeptide binding]; other site 1408186003786 catalytic residue [active] 1408186003787 Protein of unknown function (DUF3737); Region: DUF3737; pfam12541 1408186003788 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 1408186003789 active site 1408186003790 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1408186003791 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1408186003792 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1408186003793 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1408186003794 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1408186003795 propionate/acetate kinase; Provisional; Region: PRK12379 1408186003796 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1408186003797 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 1408186003798 S-adenosylmethionine binding site [chemical binding]; other site 1408186003799 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1408186003800 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 1408186003801 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1408186003802 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1408186003803 Type II/IV secretion system protein; Region: T2SE; pfam00437 1408186003804 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 1408186003805 Walker A motif; other site 1408186003806 ATP binding site [chemical binding]; other site 1408186003807 Walker B motif; other site 1408186003808 hypothetical protein; Validated; Region: PRK00110 1408186003809 Predicted integral membrane protein [Function unknown]; Region: COG5652 1408186003810 Flavoprotein; Region: Flavoprotein; pfam02441 1408186003811 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1408186003812 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1408186003813 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 1408186003814 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1408186003815 intersubunit interface [polypeptide binding]; other site 1408186003816 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1408186003817 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1408186003818 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 1408186003819 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1408186003820 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1408186003821 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1408186003822 camphor resistance protein CrcB; Provisional; Region: PRK14220 1408186003823 CrcB-like protein; Region: CRCB; pfam02537 1408186003824 sugar phosphate phosphatase; Provisional; Region: PRK10513 1408186003825 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 1408186003826 active site 1408186003827 motif I; other site 1408186003828 motif II; other site 1408186003829 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 1408186003830 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 1408186003831 active site 1408186003832 substrate binding site [chemical binding]; other site 1408186003833 metal binding site [ion binding]; metal-binding site 1408186003834 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 1408186003835 YbbR-like protein; Region: YbbR; pfam07949 1408186003836 YbbR-like protein; Region: YbbR; pfam07949 1408186003837 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1408186003838 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1408186003839 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1408186003840 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1408186003841 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1408186003842 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 1408186003843 dimer interface [polypeptide binding]; other site 1408186003844 ABC-ATPase subunit interface; other site 1408186003845 putative PBP binding loops; other site 1408186003846 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 1408186003847 dimer interface [polypeptide binding]; other site 1408186003848 conserved gate region; other site 1408186003849 putative PBP binding loops; other site 1408186003850 ABC-ATPase subunit interface; other site 1408186003851 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1408186003852 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1408186003853 Walker A/P-loop; other site 1408186003854 ATP binding site [chemical binding]; other site 1408186003855 Q-loop/lid; other site 1408186003856 ABC transporter signature motif; other site 1408186003857 Walker B; other site 1408186003858 D-loop; other site 1408186003859 H-loop/switch region; other site 1408186003860 TOBE domain; Region: TOBE_2; pfam08402 1408186003861 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1408186003862 FAD binding domain; Region: FAD_binding_4; pfam01565 1408186003863 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1408186003864 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 1408186003865 active site 1408186003866 catalytic site [active] 1408186003867 substrate binding site [chemical binding]; other site 1408186003868 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1408186003869 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1408186003870 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1408186003871 ligand binding site [chemical binding]; other site 1408186003872 active site 1408186003873 UGI interface [polypeptide binding]; other site 1408186003874 catalytic site [active] 1408186003875 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 1408186003876 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1408186003877 active site 1408186003878 motif I; other site 1408186003879 motif II; other site 1408186003880 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1408186003881 Tubby C 2; Region: Tub_2; cl02043 1408186003882 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1408186003883 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1408186003884 putative active site [active] 1408186003885 putative NTP binding site [chemical binding]; other site 1408186003886 putative nucleic acid binding site [nucleotide binding]; other site 1408186003887 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1408186003888 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1408186003889 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408186003890 Coenzyme A binding pocket [chemical binding]; other site 1408186003891 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 1408186003892 SmpB-tmRNA interface; other site 1408186003893 ribonuclease R; Region: RNase_R; TIGR02063 1408186003894 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1408186003895 RNB domain; Region: RNB; pfam00773 1408186003896 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 1408186003897 RNA binding site [nucleotide binding]; other site 1408186003898 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 1408186003899 enolase; Provisional; Region: eno; PRK00077 1408186003900 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 1408186003901 dimer interface [polypeptide binding]; other site 1408186003902 metal binding site [ion binding]; metal-binding site 1408186003903 substrate binding pocket [chemical binding]; other site 1408186003904 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 1408186003905 triosephosphate isomerase; Provisional; Region: PRK14567 1408186003906 substrate binding site [chemical binding]; other site 1408186003907 dimer interface [polypeptide binding]; other site 1408186003908 catalytic triad [active] 1408186003909 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 1408186003910 Phosphoglycerate kinase; Region: PGK; pfam00162 1408186003911 substrate binding site [chemical binding]; other site 1408186003912 hinge regions; other site 1408186003913 ADP binding site [chemical binding]; other site 1408186003914 catalytic site [active] 1408186003915 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1408186003916 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1408186003917 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1408186003918 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1408186003919 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1408186003920 Amino acid permease; Region: AA_permease_2; pfam13520 1408186003921 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1408186003922 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1408186003923 oligomer interface [polypeptide binding]; other site 1408186003924 active site residues [active] 1408186003925 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1408186003926 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1408186003927 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1408186003928 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1408186003929 phosphate binding site [ion binding]; other site 1408186003930 putative substrate binding pocket [chemical binding]; other site 1408186003931 dimer interface [polypeptide binding]; other site 1408186003932 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1408186003933 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1408186003934 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408186003935 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1408186003936 Walker A/P-loop; other site 1408186003937 ATP binding site [chemical binding]; other site 1408186003938 Q-loop/lid; other site 1408186003939 ABC transporter signature motif; other site 1408186003940 Walker B; other site 1408186003941 D-loop; other site 1408186003942 H-loop/switch region; other site 1408186003943 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1408186003944 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1408186003945 active site 1408186003946 substrate binding site [chemical binding]; other site 1408186003947 ATP binding site [chemical binding]; other site 1408186003948 activation loop (A-loop); other site 1408186003949 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 1408186003950 active site 1408186003951 zinc binding site [ion binding]; other site 1408186003952 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 1408186003953 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1408186003954 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1408186003955 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1408186003956 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1408186003957 excinuclease ABC subunit B; Provisional; Region: PRK05298 1408186003958 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 1408186003959 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 1408186003960 ATP-binding site [chemical binding]; other site 1408186003961 ATP binding site [chemical binding]; other site 1408186003962 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 1408186003963 nucleotide binding region [chemical binding]; other site 1408186003964 ATP-binding site [chemical binding]; other site 1408186003965 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1408186003966 UvrB/uvrC motif; Region: UVR; pfam02151 1408186003967 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1408186003968 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 1408186003969 active site 1408186003970 substrate binding site [chemical binding]; other site 1408186003971 metal binding site [ion binding]; metal-binding site 1408186003972 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1408186003973 active site 1408186003974 catalytic residues [active] 1408186003975 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 1408186003976 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 1408186003977 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 1408186003978 galactokinase; Provisional; Region: PRK05322 1408186003979 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1408186003980 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1408186003981 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 1408186003982 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 1408186003983 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1408186003984 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 1408186003985 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1408186003986 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 1408186003987 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 1408186003988 HPr interaction site; other site 1408186003989 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1408186003990 active site 1408186003991 phosphorylation site [posttranslational modification] 1408186003992 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 1408186003993 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1408186003994 DNA binding site [nucleotide binding] 1408186003995 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 1408186003996 putative dimerization interface [polypeptide binding]; other site 1408186003997 putative ligand binding site [chemical binding]; other site 1408186003998 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1408186003999 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1408186004000 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1408186004001 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 1408186004002 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1408186004003 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1408186004004 NAD binding site [chemical binding]; other site 1408186004005 homodimer interface [polypeptide binding]; other site 1408186004006 active site 1408186004007 substrate binding site [chemical binding]; other site 1408186004008 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1408186004009 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1408186004010 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1408186004011 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1408186004012 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1408186004013 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1408186004014 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 1408186004015 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1408186004016 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1408186004017 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 1408186004018 Hpr binding site; other site 1408186004019 active site 1408186004020 homohexamer subunit interaction site [polypeptide binding]; other site 1408186004021 peptide chain release factor 2; Provisional; Region: PRK05589 1408186004022 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1408186004023 RF-1 domain; Region: RF-1; pfam00472 1408186004024 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12906 1408186004025 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1408186004026 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 1408186004027 nucleotide binding region [chemical binding]; other site 1408186004028 ATP-binding site [chemical binding]; other site 1408186004029 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 1408186004030 30S subunit binding site; other site 1408186004031 comF family protein; Region: comF; TIGR00201 1408186004032 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408186004033 active site 1408186004034 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 1408186004035 ATP binding site [chemical binding]; other site 1408186004036 putative Mg++ binding site [ion binding]; other site 1408186004037 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 1408186004038 nucleotide binding region [chemical binding]; other site 1408186004039 ATP-binding site [chemical binding]; other site 1408186004040 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1408186004041 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1408186004042 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1408186004043 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1408186004044 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 1408186004045 Mg++ binding site [ion binding]; other site 1408186004046 putative catalytic motif [active] 1408186004047 substrate binding site [chemical binding]; other site 1408186004048 phosphodiesterase; Provisional; Region: PRK12704 1408186004049 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1408186004050 Zn2+ binding site [ion binding]; other site 1408186004051 Mg2+ binding site [ion binding]; other site 1408186004052 recombinase A; Provisional; Region: recA; PRK09354 1408186004053 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 1408186004054 hexamer interface [polypeptide binding]; other site 1408186004055 Walker A motif; other site 1408186004056 ATP binding site [chemical binding]; other site 1408186004057 Walker B motif; other site 1408186004058 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1408186004059 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1408186004060 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 1408186004061 non-specific DNA binding site [nucleotide binding]; other site 1408186004062 salt bridge; other site 1408186004063 sequence-specific DNA binding site [nucleotide binding]; other site 1408186004064 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1408186004065 classical (c) SDRs; Region: SDR_c; cd05233 1408186004066 NAD(P) binding site [chemical binding]; other site 1408186004067 active site 1408186004068 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1408186004069 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1408186004070 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1408186004071 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1408186004072 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1408186004073 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1408186004074 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1408186004075 Protein of unknown function (DUF1149); Region: DUF1149; cl11551 1408186004076 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1408186004077 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1408186004078 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1408186004079 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 1408186004080 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1408186004081 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 1408186004082 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 1408186004083 Walker A motif; other site 1408186004084 ATP binding site [chemical binding]; other site 1408186004085 Walker B motif; other site 1408186004086 arginine finger; other site 1408186004087 Uncharacterized conserved protein [Function unknown]; Region: COG3410 1408186004088 myosin-cross-reactive antigen; Provisional; Region: PRK13977 1408186004089 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1408186004090 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1408186004091 active site 1408186004092 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 1408186004093 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1408186004094 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1408186004095 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1408186004096 synthetase active site [active] 1408186004097 NTP binding site [chemical binding]; other site 1408186004098 metal binding site [ion binding]; metal-binding site 1408186004099 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 1408186004100 putative active site [active] 1408186004101 putative metal binding residues [ion binding]; other site 1408186004102 signature motif; other site 1408186004103 putative triphosphate binding site [ion binding]; other site 1408186004104 Thioredoxin; Region: Thioredoxin_5; pfam13743 1408186004105 Competence protein CoiA-like family; Region: CoiA; cl11541 1408186004106 adaptor protein; Provisional; Region: PRK02315 1408186004107 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 1408186004108 ArsC family; Region: ArsC; pfam03960 1408186004109 putative catalytic residues [active] 1408186004110 thiol/disulfide switch; other site 1408186004111 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1408186004112 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1408186004113 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1408186004114 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1408186004115 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 1408186004116 dimerization domain swap beta strand [polypeptide binding]; other site 1408186004117 regulatory protein interface [polypeptide binding]; other site 1408186004118 active site 1408186004119 regulatory phosphorylation site [posttranslational modification]; other site 1408186004120 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 1408186004121 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1408186004122 Walker A motif; other site 1408186004123 ATP binding site [chemical binding]; other site 1408186004124 Walker B motif; other site 1408186004125 arginine finger; other site 1408186004126 UvrB/uvrC motif; Region: UVR; pfam02151 1408186004127 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 1408186004128 Walker A motif; other site 1408186004129 ATP binding site [chemical binding]; other site 1408186004130 Walker B motif; other site 1408186004131 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1408186004132 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 1408186004133 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1408186004134 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1408186004135 G1 box; other site 1408186004136 putative GEF interaction site [polypeptide binding]; other site 1408186004137 GTP/Mg2+ binding site [chemical binding]; other site 1408186004138 Switch I region; other site 1408186004139 G2 box; other site 1408186004140 G3 box; other site 1408186004141 Switch II region; other site 1408186004142 G4 box; other site 1408186004143 G5 box; other site 1408186004144 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 1408186004145 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1408186004146 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 1408186004147 Transporter associated domain; Region: CorC_HlyC; pfam03471 1408186004148 hypothetical protein; Provisional; Region: PRK13662 1408186004149 recombination regulator RecX; Provisional; Region: recX; PRK14135 1408186004150 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1408186004151 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 1408186004152 S-adenosylmethionine binding site [chemical binding]; other site 1408186004153 "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 1408186004154 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 1408186004155 dimer interface [polypeptide binding]; other site 1408186004156 active site 1408186004157 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 1408186004158 homodimer interface [polypeptide binding]; other site 1408186004159 catalytic residues [active] 1408186004160 NAD binding site [chemical binding]; other site 1408186004161 substrate binding pocket [chemical binding]; other site 1408186004162 flexible flap; other site 1408186004163 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 1408186004164 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 1408186004165 dimer interface [polypeptide binding]; other site 1408186004166 active site 1408186004167 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1408186004168 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1408186004169 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1408186004170 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 1408186004171 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1408186004172 active site 1408186004173 motif I; other site 1408186004174 motif II; other site 1408186004175 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1408186004176 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 1408186004177 putative substrate translocation pore; other site 1408186004178 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1408186004179 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1408186004180 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1408186004181 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1408186004182 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1408186004183 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1408186004184 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 1408186004185 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 1408186004186 active site residue [active] 1408186004187 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 1408186004188 Rhomboid family; Region: Rhomboid; pfam01694 1408186004189 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1408186004190 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1408186004191 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1408186004192 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1408186004193 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1408186004194 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 1408186004195 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1408186004196 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1408186004197 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1408186004198 YceG-like family; Region: YceG; pfam02618 1408186004199 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1408186004200 dimerization interface [polypeptide binding]; other site 1408186004201 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1408186004202 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 1408186004203 putative tRNA-binding site [nucleotide binding]; other site 1408186004204 B3/4 domain; Region: B3_4; pfam03483 1408186004205 tRNA synthetase B5 domain; Region: B5; smart00874 1408186004206 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 1408186004207 dimer interface [polypeptide binding]; other site 1408186004208 motif 1; other site 1408186004209 motif 3; other site 1408186004210 motif 2; other site 1408186004211 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1408186004212 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1408186004213 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1408186004214 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 1408186004215 dimer interface [polypeptide binding]; other site 1408186004216 motif 1; other site 1408186004217 active site 1408186004218 motif 2; other site 1408186004219 motif 3; other site 1408186004220 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408186004221 Predicted transcriptional regulators [Transcription]; Region: COG1733 1408186004222 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1408186004223 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 1408186004224 OxaA-like protein precursor; Provisional; Region: PRK02463 1408186004225 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1408186004226 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1408186004227 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1408186004228 putative active site [active] 1408186004229 putative NTP binding site [chemical binding]; other site 1408186004230 putative nucleic acid binding site [nucleotide binding]; other site 1408186004231 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1408186004232 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1408186004233 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 1408186004234 dimerization interface [polypeptide binding]; other site 1408186004235 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 1408186004236 dimer interface [polypeptide binding]; other site 1408186004237 phosphorylation site [posttranslational modification] 1408186004238 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 1408186004239 ATP binding site [chemical binding]; other site 1408186004240 Mg2+ binding site [ion binding]; other site 1408186004241 G-X-G motif; other site 1408186004242 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1408186004243 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 1408186004244 active site 1408186004245 phosphorylation site [posttranslational modification] 1408186004246 intermolecular recognition site; other site 1408186004247 dimerization interface [polypeptide binding]; other site 1408186004248 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 1408186004249 DNA binding site [nucleotide binding] 1408186004250 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1408186004251 hypothetical protein; Provisional; Region: PRK13670 1408186004252 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 1408186004253 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1408186004254 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1408186004255 Zn2+ binding site [ion binding]; other site 1408186004256 Mg2+ binding site [ion binding]; other site 1408186004257 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1408186004258 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1408186004259 active site 1408186004260 (T/H)XGH motif; other site 1408186004261 GTPase YqeH; Provisional; Region: PRK13796 1408186004262 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 1408186004263 GTP/Mg2+ binding site [chemical binding]; other site 1408186004264 G4 box; other site 1408186004265 G5 box; other site 1408186004266 G1 box; other site 1408186004267 Switch I region; other site 1408186004268 G2 box; other site 1408186004269 G3 box; other site 1408186004270 Switch II region; other site 1408186004271 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1408186004272 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 1408186004273 active site 1408186004274 motif I; other site 1408186004275 motif II; other site 1408186004276 adenosine deaminase; Provisional; Region: PRK09358 1408186004277 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1408186004278 active site 1408186004279 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1408186004280 23S rRNA binding site [nucleotide binding]; other site 1408186004281 L21 binding site [polypeptide binding]; other site 1408186004282 L13 binding site [polypeptide binding]; other site 1408186004283 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1408186004284 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1408186004285 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1408186004286 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1408186004287 ribosomal protein L20 leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408186004288 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 1408186004289 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1408186004290 Walker A/P-loop; other site 1408186004291 ATP binding site [chemical binding]; other site 1408186004292 Q-loop/lid; other site 1408186004293 ABC transporter signature motif; other site 1408186004294 Walker B; other site 1408186004295 D-loop; other site 1408186004296 H-loop/switch region; other site 1408186004297 LytTr DNA-binding domain; Region: LytTR; smart00850 1408186004298 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1408186004299 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1408186004300 putative active site [active] 1408186004301 putative NTP binding site [chemical binding]; other site 1408186004302 putative nucleic acid binding site [nucleotide binding]; other site 1408186004303 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1408186004304 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 1408186004305 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1408186004306 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1408186004307 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 1408186004308 active site 1408186004309 dimer interface [polypeptide binding]; other site 1408186004310 motif 1; other site 1408186004311 motif 2; other site 1408186004312 motif 3; other site 1408186004313 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 1408186004314 anticodon binding site; other site 1408186004315 primosomal protein DnaI; Reviewed; Region: PRK08939 1408186004316 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 1408186004317 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 1408186004318 Walker A motif; other site 1408186004319 ATP binding site [chemical binding]; other site 1408186004320 Walker B motif; other site 1408186004321 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 1408186004322 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1408186004323 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1408186004324 ATP cone domain; Region: ATP-cone; pfam03477 1408186004325 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1408186004326 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 1408186004327 CoA-binding site [chemical binding]; other site 1408186004328 ATP-binding [chemical binding]; other site 1408186004329 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1408186004330 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1408186004331 DNA binding site [nucleotide binding] 1408186004332 catalytic residue [active] 1408186004333 H2TH interface [polypeptide binding]; other site 1408186004334 putative catalytic residues [active] 1408186004335 turnover-facilitating residue; other site 1408186004336 intercalation triad [nucleotide binding]; other site 1408186004337 8OG recognition residue [nucleotide binding]; other site 1408186004338 putative reading head residues; other site 1408186004339 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1408186004340 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1408186004341 DNA polymerase I; Provisional; Region: PRK05755 1408186004342 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1408186004343 active site 1408186004344 metal binding site 1 [ion binding]; metal-binding site 1408186004345 putative 5' ssDNA interaction site; other site 1408186004346 metal binding site 3; metal-binding site 1408186004347 metal binding site 2 [ion binding]; metal-binding site 1408186004348 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1408186004349 putative DNA binding site [nucleotide binding]; other site 1408186004350 putative metal binding site [ion binding]; other site 1408186004351 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 1408186004352 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1408186004353 active site 1408186004354 DNA binding site [nucleotide binding] 1408186004355 catalytic site [active] 1408186004356 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 1408186004357 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 1408186004358 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 1408186004359 active site 1408186004360 phosphorylation site [posttranslational modification] 1408186004361 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 1408186004362 active pocket/dimerization site; other site 1408186004363 active site 1408186004364 phosphorylation site [posttranslational modification] 1408186004365 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 1408186004366 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1408186004367 ligand binding site [chemical binding]; other site 1408186004368 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1408186004369 Histidine kinase; Region: HisKA_3; pfam07730 1408186004370 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1408186004371 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1408186004372 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 1408186004373 active site 1408186004374 phosphorylation site [posttranslational modification] 1408186004375 intermolecular recognition site; other site 1408186004376 dimerization interface [polypeptide binding]; other site 1408186004377 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 1408186004378 DNA binding residues [nucleotide binding] 1408186004379 dimerization interface [polypeptide binding]; other site 1408186004380 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1408186004381 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1408186004382 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1408186004383 intersubunit interface [polypeptide binding]; other site 1408186004384 active site 1408186004385 catalytic residue [active] 1408186004386 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1408186004387 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1408186004388 DNA-binding site [nucleotide binding]; DNA binding site 1408186004389 UTRA domain; Region: UTRA; pfam07702 1408186004390 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1408186004391 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1408186004392 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1408186004393 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1408186004394 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 1408186004395 putative tRNA-binding site [nucleotide binding]; other site 1408186004396 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 1408186004397 catalytic residues [active] 1408186004398 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 1408186004399 S-adenosylmethionine binding site [chemical binding]; other site 1408186004400 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 1408186004401 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1408186004402 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1408186004403 Walker A/P-loop; other site 1408186004404 ATP binding site [chemical binding]; other site 1408186004405 Q-loop/lid; other site 1408186004406 ABC transporter signature motif; other site 1408186004407 Walker B; other site 1408186004408 D-loop; other site 1408186004409 H-loop/switch region; other site 1408186004410 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 1408186004411 HIT family signature motif; other site 1408186004412 catalytic residue [active] 1408186004413 YtxH-like protein; Region: YtxH; pfam12732 1408186004414 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 1408186004415 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1408186004416 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 1408186004417 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 1408186004418 generic binding surface II; other site 1408186004419 generic binding surface I; other site 1408186004420 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1408186004421 Zn2+ binding site [ion binding]; other site 1408186004422 Mg2+ binding site [ion binding]; other site 1408186004423 P-loop containing region of AAA domain; Region: AAA_29; cl17516 1408186004424 AAA domain; Region: AAA_23; pfam13476 1408186004425 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 1408186004426 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1408186004427 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1408186004428 active site 1408186004429 metal binding site [ion binding]; metal-binding site 1408186004430 DNA binding site [nucleotide binding] 1408186004431 hypothetical protein; Provisional; Region: PRK13676 1408186004432 Transglycosylase; Region: Transgly; pfam00912 1408186004433 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1408186004434 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1408186004435 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1408186004436 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1408186004437 active site 1408186004438 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 1408186004439 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 1408186004440 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 1408186004441 nudix motif; other site 1408186004442 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 1408186004443 Phosphotransferase enzyme family; Region: APH; pfam01636 1408186004444 active site 1408186004445 ATP binding site [chemical binding]; other site 1408186004446 antibiotic binding site [chemical binding]; other site 1408186004447 Beta-lactamase; Region: Beta-lactamase; pfam00144 1408186004448 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1408186004449 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1408186004450 TRAM domain; Region: TRAM; pfam01938 1408186004451 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 1408186004452 S-adenosylmethionine binding site [chemical binding]; other site 1408186004453 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 1408186004454 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1408186004455 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 1408186004456 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1408186004457 Walker A/P-loop; other site 1408186004458 ATP binding site [chemical binding]; other site 1408186004459 Q-loop/lid; other site 1408186004460 ABC transporter signature motif; other site 1408186004461 Walker B; other site 1408186004462 D-loop; other site 1408186004463 H-loop/switch region; other site 1408186004464 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408186004465 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1408186004466 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186004467 H-loop/switch region; other site 1408186004468 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1408186004469 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1408186004470 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1408186004471 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1408186004472 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 1408186004473 Ligand binding site; other site 1408186004474 metal-binding site 1408186004475 glycosyltransferase, SP_1767 family; Region: glyco_access_1; TIGR03728 1408186004476 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 1408186004477 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1408186004478 Ligand binding site; other site 1408186004479 metal-binding site 1408186004480 glycosyltransferase, SP_1767 family; Region: glyco_access_1; TIGR03728 1408186004481 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 1408186004482 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1408186004483 Ligand binding site; other site 1408186004484 metal-binding site 1408186004485 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1408186004486 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 1408186004487 active site 1408186004488 glycosyltransferase, SP_1767 family; Region: glyco_access_1; TIGR03728 1408186004489 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 1408186004490 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1408186004491 active site 1408186004492 motif I; other site 1408186004493 motif II; other site 1408186004494 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 1408186004495 putative lipid kinase; Reviewed; Region: PRK13337 1408186004496 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1408186004497 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1408186004498 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1408186004499 GatB domain; Region: GatB_Yqey; smart00845 1408186004500 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1408186004501 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1408186004502 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1408186004503 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 1408186004504 putative dimer interface [polypeptide binding]; other site 1408186004505 CamS sex pheromone cAM373 precursor; Region: CamS; pfam07537 1408186004506 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 1408186004507 putative dimer interface [polypeptide binding]; other site 1408186004508 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1408186004509 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 1408186004510 nucleotide binding pocket [chemical binding]; other site 1408186004511 K-X-D-G motif; other site 1408186004512 catalytic site [active] 1408186004513 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1408186004514 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1408186004515 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 1408186004516 Dimer interface [polypeptide binding]; other site 1408186004517 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1408186004518 Part of AAA domain; Region: AAA_19; pfam13245 1408186004519 Family description; Region: UvrD_C_2; pfam13538 1408186004520 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1408186004521 Predicted membrane protein [Function unknown]; Region: COG4684 1408186004522 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1408186004523 hypothetical protein; Provisional; Region: PRK04351 1408186004524 SprT homologues; Region: SprT; cl01182 1408186004525 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 1408186004526 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1408186004527 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1408186004528 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1408186004529 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 1408186004530 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1408186004531 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 1408186004532 non-specific DNA binding site [nucleotide binding]; other site 1408186004533 salt bridge; other site 1408186004534 sequence-specific DNA binding site [nucleotide binding]; other site 1408186004535 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1408186004536 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408186004537 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1408186004538 Walker A/P-loop; other site 1408186004539 ATP binding site [chemical binding]; other site 1408186004540 Q-loop/lid; other site 1408186004541 ABC transporter signature motif; other site 1408186004542 Walker B; other site 1408186004543 D-loop; other site 1408186004544 H-loop/switch region; other site 1408186004545 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1408186004546 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1408186004547 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1408186004548 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1408186004549 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1408186004550 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1408186004551 stage V sporulation protein K; Region: spore_V_K; TIGR02881 1408186004552 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 1408186004553 Walker A motif; other site 1408186004554 ATP binding site [chemical binding]; other site 1408186004555 Walker B motif; other site 1408186004556 arginine finger; other site 1408186004557 NAD synthetase; Reviewed; Region: nadE; PRK00768 1408186004558 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1408186004559 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1408186004560 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 1408186004561 active site 1408186004562 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1408186004563 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 1408186004564 active site 1408186004565 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1408186004566 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 1408186004567 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 1408186004568 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1408186004569 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1408186004570 active site 1408186004571 nucleotide binding site [chemical binding]; other site 1408186004572 HIGH motif; other site 1408186004573 KMSKS motif; other site 1408186004574 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1408186004575 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1408186004576 DNA-binding site [nucleotide binding]; DNA binding site 1408186004577 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1408186004578 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 1408186004579 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 1408186004580 active site residue [active] 1408186004581 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1408186004582 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1408186004583 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 1408186004584 NAD binding site [chemical binding]; other site 1408186004585 dimer interface [polypeptide binding]; other site 1408186004586 substrate binding site [chemical binding]; other site 1408186004587 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1408186004588 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1408186004589 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 1408186004590 putative active site [active] 1408186004591 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 1408186004592 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1408186004593 active site 1408186004594 dimer interface [polypeptide binding]; other site 1408186004595 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1408186004596 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1408186004597 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 1408186004598 Predicted membrane protein [Function unknown]; Region: COG4905 1408186004599 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 1408186004600 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 1408186004601 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408186004602 Coenzyme A binding pocket [chemical binding]; other site 1408186004603 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 1408186004604 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1408186004605 active site 1408186004606 catalytic tetrad [active] 1408186004607 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 1408186004608 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1408186004609 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1408186004610 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1408186004611 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1408186004612 Probable transposase; Region: OrfB_IS605; pfam01385 1408186004613 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1408186004614 Piccolo Zn-finger; Region: zf-piccolo; pfam05715 1408186004615 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1408186004616 Probable transposase; Region: OrfB_IS605; pfam01385 1408186004617 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1408186004618 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1408186004619 Sec23/Sec24 zinc finger; Region: zf-Sec23_Sec24; pfam04810 1408186004620 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1408186004621 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1408186004622 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 1408186004623 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 1408186004624 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1408186004625 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1408186004626 Probable transposase; Region: OrfB_IS605; pfam01385 1408186004627 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1408186004628 Piccolo Zn-finger; Region: zf-piccolo; pfam05715 1408186004629 TIGR02452 family protein; Region: TIGR02452 1408186004630 Uncharacterized protein conserved in bacteria (DUF2263); Region: DUF2263; pfam10021 1408186004631 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1408186004632 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1408186004633 NAD binding site [chemical binding]; other site 1408186004634 homodimer interface [polypeptide binding]; other site 1408186004635 active site 1408186004636 substrate binding site [chemical binding]; other site 1408186004637 CRISPR-associated helicase Cas3, subtype CYANO; Region: cas3_cyano; TIGR03158 1408186004638 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 1408186004639 ATP binding site [chemical binding]; other site 1408186004640 putative Mg++ binding site [ion binding]; other site 1408186004641 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 1408186004642 nucleotide binding region [chemical binding]; other site 1408186004643 ATP-binding site [chemical binding]; other site 1408186004644 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 1408186004645 AAA ATPase domain; Region: AAA_16; pfam13191 1408186004646 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1408186004647 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1408186004648 putative active site [active] 1408186004649 putative NTP binding site [chemical binding]; other site 1408186004650 putative nucleic acid binding site [nucleotide binding]; other site 1408186004651 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1408186004652 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1408186004653 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1408186004654 putative catalytic cysteine [active] 1408186004655 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1408186004656 putative active site [active] 1408186004657 metal binding site [ion binding]; metal-binding site 1408186004658 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1408186004659 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1408186004660 Sulfatase; Region: Sulfatase; pfam00884 1408186004661 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1408186004662 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1408186004663 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 1408186004664 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1408186004665 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 1408186004666 putative ADP-binding pocket [chemical binding]; other site 1408186004667 seryl-tRNA synthetase; Provisional; Region: PRK05431 1408186004668 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1408186004669 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 1408186004670 dimer interface [polypeptide binding]; other site 1408186004671 active site 1408186004672 motif 1; other site 1408186004673 motif 2; other site 1408186004674 motif 3; other site 1408186004675 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408186004676 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1408186004677 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1408186004678 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1408186004679 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1408186004680 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1408186004681 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1408186004682 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 1408186004683 salt bridge; other site 1408186004684 non-specific DNA binding site [nucleotide binding]; other site 1408186004685 sequence-specific DNA binding site [nucleotide binding]; other site 1408186004686 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1408186004687 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1408186004688 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1408186004689 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1408186004690 NAD(P) binding site [chemical binding]; other site 1408186004691 catalytic residues [active] 1408186004692 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1408186004693 Double zinc ribbon; Region: DZR; pfam12773 1408186004694 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1408186004695 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 1408186004696 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1408186004697 active site 1408186004698 motif I; other site 1408186004699 motif II; other site 1408186004700 MMPL family; Region: MMPL; pfam03176 1408186004701 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 1408186004702 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 1408186004703 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1408186004704 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1408186004705 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1408186004706 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1408186004707 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1408186004708 nucleotide binding site [chemical binding]; other site 1408186004709 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408186004710 Coenzyme A binding pocket [chemical binding]; other site 1408186004711 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408186004712 Coenzyme A binding pocket [chemical binding]; other site 1408186004713 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1408186004714 MarR family; Region: MarR; pfam01047 1408186004715 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 1408186004716 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1408186004717 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1408186004718 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1408186004719 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1408186004720 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1408186004721 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1408186004722 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 1408186004723 dimer interface [polypeptide binding]; other site 1408186004724 conserved gate region; other site 1408186004725 putative PBP binding loops; other site 1408186004726 ABC-ATPase subunit interface; other site 1408186004727 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 1408186004728 dimer interface [polypeptide binding]; other site 1408186004729 conserved gate region; other site 1408186004730 putative PBP binding loops; other site 1408186004731 ABC-ATPase subunit interface; other site 1408186004732 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1408186004733 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1408186004734 Walker A/P-loop; other site 1408186004735 ATP binding site [chemical binding]; other site 1408186004736 Q-loop/lid; other site 1408186004737 ABC transporter signature motif; other site 1408186004738 Walker B; other site 1408186004739 D-loop; other site 1408186004740 H-loop/switch region; other site 1408186004741 TOBE domain; Region: TOBE_2; pfam08402 1408186004742 Peptidase family C69; Region: Peptidase_C69; pfam03577 1408186004743 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1408186004744 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 1408186004745 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 1408186004746 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1408186004747 active site 1408186004748 catalytic tetrad [active] 1408186004749 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 1408186004750 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 1408186004751 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1408186004752 active site 1408186004753 catalytic site [active] 1408186004754 substrate binding site [chemical binding]; other site 1408186004755 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 1408186004756 Predicted membrane protein [Function unknown]; Region: COG2323 1408186004757 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 1408186004758 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1408186004759 peptidase T; Region: peptidase-T; TIGR01882 1408186004760 metal binding site [ion binding]; metal-binding site 1408186004761 dimer interface [polypeptide binding]; other site 1408186004762 PAS domain; Region: PAS_10; pfam13596 1408186004763 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1408186004764 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 1408186004765 MucBP domain; Region: MucBP; pfam06458 1408186004766 MucBP domain; Region: MucBP; pfam06458 1408186004767 MucBP domain; Region: MucBP; pfam06458 1408186004768 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1408186004769 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1408186004770 PAS domain; Region: PAS_10; pfam13596 1408186004771 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1408186004772 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1408186004773 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408186004774 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 1408186004775 substrate binding site [chemical binding]; other site 1408186004776 THF binding site; other site 1408186004777 zinc-binding site [ion binding]; other site 1408186004778 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1408186004779 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 1408186004780 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 1408186004781 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 1408186004782 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1408186004783 active pocket/dimerization site; other site 1408186004784 active site 1408186004785 phosphorylation site [posttranslational modification] 1408186004786 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 1408186004787 active site 1408186004788 phosphorylation site [posttranslational modification] 1408186004789 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 1408186004790 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1408186004791 peptide binding site [polypeptide binding]; other site 1408186004792 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1408186004793 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1408186004794 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1408186004795 EamA-like transporter family; Region: EamA; pfam00892 1408186004796 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1408186004797 EamA-like transporter family; Region: EamA; pfam00892 1408186004798 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 1408186004799 active site turn [active] 1408186004800 phosphorylation site [posttranslational modification] 1408186004801 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1408186004802 CAT RNA binding domain; Region: CAT_RBD; smart01061 1408186004803 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1408186004804 PRD domain; Region: PRD; pfam00874 1408186004805 PRD domain; Region: PRD; pfam00874 1408186004806 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 1408186004807 Rib/alpha-like repeat; Region: Rib; pfam08428 1408186004808 Rib/alpha-like repeat; Region: Rib; pfam08428 1408186004809 Rib/alpha-like repeat; Region: Rib; pfam08428 1408186004810 Rib/alpha-like repeat; Region: Rib; pfam08428 1408186004811 Rib/alpha-like repeat; Region: Rib; pfam08428 1408186004812 Rib/alpha-like repeat; Region: Rib; pfam08428 1408186004813 Rib/alpha-like repeat; Region: Rib; pfam08428 1408186004814 Rib/alpha-like repeat; Region: Rib; pfam08428 1408186004815 Rib/alpha-like repeat; Region: Rib; pfam08428 1408186004816 Rib/alpha-like repeat; Region: Rib; pfam08428 1408186004817 Rib/alpha-like repeat; Region: Rib; pfam08428 1408186004818 Rib/alpha-like repeat; Region: Rib; pfam08428 1408186004819 Rib/alpha-like repeat; Region: Rib; pfam08428 1408186004820 elongation factor P; Validated; Region: PRK00529 1408186004821 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1408186004822 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 1408186004823 RNA binding site [nucleotide binding]; other site 1408186004824 Elongation factor P, C-terminal; Region: Elong-fact-P_C; pfam09285 1408186004825 RNA binding site [nucleotide binding]; other site 1408186004826 pantothenate kinase; Provisional; Region: PRK05439 1408186004827 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 1408186004828 ATP-binding site [chemical binding]; other site 1408186004829 CoA-binding site [chemical binding]; other site 1408186004830 Mg2+-binding site [ion binding]; other site 1408186004831 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 1408186004832 active site 1408186004833 catalytic triad [active] 1408186004834 oxyanion hole [active] 1408186004835 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 1408186004836 putative active site [active] 1408186004837 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 1408186004838 Part of AAA domain; Region: AAA_19; pfam13245 1408186004839 Family description; Region: UvrD_C_2; pfam13538 1408186004840 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 1408186004841 active site 1408186004842 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1408186004843 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1408186004844 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1408186004845 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1408186004846 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 1408186004847 motif II; other site 1408186004848 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1408186004849 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1408186004850 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1408186004851 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 1408186004852 putative active site [active] 1408186004853 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 1408186004854 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 1408186004855 putative active site cavity [active] 1408186004856 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 1408186004857 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1408186004858 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 1408186004859 active site turn [active] 1408186004860 phosphorylation site [posttranslational modification] 1408186004861 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1408186004862 HPr interaction site; other site 1408186004863 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1408186004864 active site 1408186004865 phosphorylation site [posttranslational modification] 1408186004866 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1408186004867 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1408186004868 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1408186004869 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1408186004870 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1408186004871 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 1408186004872 active site 1408186004873 putative catalytic site [active] 1408186004874 DNA binding site [nucleotide binding] 1408186004875 putative phosphate binding site [ion binding]; other site 1408186004876 metal binding site A [ion binding]; metal-binding site 1408186004877 AP binding site [nucleotide binding]; other site 1408186004878 metal binding site B [ion binding]; metal-binding site 1408186004879 protein-export membrane protein SecD; Region: secD; TIGR01129 1408186004880 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 1408186004881 catalytic core [active] 1408186004882 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1408186004883 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1408186004884 Walker A/P-loop; other site 1408186004885 ATP binding site [chemical binding]; other site 1408186004886 Q-loop/lid; other site 1408186004887 ABC transporter signature motif; other site 1408186004888 Walker B; other site 1408186004889 D-loop; other site 1408186004890 H-loop/switch region; other site 1408186004891 Amino acid permease; Region: AA_permease_2; pfam13520 1408186004892 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186004893 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1408186004894 Walker A/P-loop; other site 1408186004895 ATP binding site [chemical binding]; other site 1408186004896 Q-loop/lid; other site 1408186004897 ABC transporter signature motif; other site 1408186004898 Walker B; other site 1408186004899 D-loop; other site 1408186004900 H-loop/switch region; other site 1408186004901 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1408186004902 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1408186004903 HflX GTPase family; Region: HflX; cd01878 1408186004904 G1 box; other site 1408186004905 GTP/Mg2+ binding site [chemical binding]; other site 1408186004906 Switch I region; other site 1408186004907 G2 box; other site 1408186004908 G3 box; other site 1408186004909 Switch II region; other site 1408186004910 G4 box; other site 1408186004911 G5 box; other site 1408186004912 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1408186004913 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1408186004914 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1408186004915 NlpC/P60 family; Region: NLPC_P60; pfam00877 1408186004916 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1408186004917 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 1408186004918 catalytic site [active] 1408186004919 G-X2-G-X-G-K; other site 1408186004920 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 1408186004921 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1408186004922 dimer interface [polypeptide binding]; other site 1408186004923 putative radical transfer pathway; other site 1408186004924 diiron center [ion binding]; other site 1408186004925 tyrosyl radical; other site 1408186004926 PemK-like protein; Region: PemK; pfam02452 1408186004927 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 1408186004928 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 1408186004929 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1408186004930 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1408186004931 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1408186004932 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1408186004933 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186004934 Walker A/P-loop; other site 1408186004935 ATP binding site [chemical binding]; other site 1408186004936 Q-loop/lid; other site 1408186004937 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1408186004938 ABC transporter signature motif; other site 1408186004939 Walker B; other site 1408186004940 D-loop; other site 1408186004941 ABC transporter; Region: ABC_tran_2; pfam12848 1408186004942 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1408186004943 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1408186004944 oligoendopeptidase F; Region: pepF; TIGR00181 1408186004945 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1408186004946 active site 1408186004947 Zn binding site [ion binding]; other site 1408186004948 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1408186004949 L-lactate permease; Region: Lactate_perm; cl00701 1408186004950 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1408186004951 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 1408186004952 ABC-ATPase subunit interface; other site 1408186004953 dimer interface [polypeptide binding]; other site 1408186004954 putative PBP binding regions; other site 1408186004955 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1408186004956 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1408186004957 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 1408186004958 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1408186004959 intersubunit interface [polypeptide binding]; other site 1408186004960 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 1408186004961 dimerization interface [polypeptide binding]; other site 1408186004962 putative DNA binding site [nucleotide binding]; other site 1408186004963 putative Zn2+ binding site [ion binding]; other site 1408186004964 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1408186004965 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 1408186004966 active site 1408186004967 motif I; other site 1408186004968 motif II; other site 1408186004969 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 1408186004970 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 1408186004971 MucBP domain; Region: MucBP; pfam06458 1408186004972 MucBP domain; Region: MucBP; pfam06458 1408186004973 MucBP domain; Region: MucBP; pfam06458 1408186004974 MucBP domain; Region: MucBP; pfam06458 1408186004975 MucBP domain; Region: MucBP; pfam06458 1408186004976 MucBP domain; Region: MucBP; pfam06458 1408186004977 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 1408186004978 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 1408186004979 active site 1408186004980 phosphorylation site [posttranslational modification] 1408186004981 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 1408186004982 active site 1408186004983 P-loop; other site 1408186004984 phosphorylation site [posttranslational modification] 1408186004985 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1408186004986 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1408186004987 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 1408186004988 putative substrate binding site [chemical binding]; other site 1408186004989 putative ATP binding site [chemical binding]; other site 1408186004990 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1408186004991 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1408186004992 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1408186004993 putative alpha-glucosidase; Provisional; Region: PRK10658 1408186004994 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1408186004995 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 1408186004996 trimer interface [polypeptide binding]; other site 1408186004997 active site 1408186004998 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 1408186004999 catalytic site [active] 1408186005000 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1408186005001 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 1408186005002 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186005003 Walker A/P-loop; other site 1408186005004 ATP binding site [chemical binding]; other site 1408186005005 Q-loop/lid; other site 1408186005006 ABC transporter signature motif; other site 1408186005007 Walker B; other site 1408186005008 D-loop; other site 1408186005009 H-loop/switch region; other site 1408186005010 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1408186005011 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1408186005012 aspartate racemase; Region: asp_race; TIGR00035 1408186005013 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1408186005014 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1408186005015 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1408186005016 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1408186005017 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1408186005018 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 1408186005019 dimer interface [polypeptide binding]; other site 1408186005020 phosphorylation site [posttranslational modification] 1408186005021 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 1408186005022 ATP binding site [chemical binding]; other site 1408186005023 Mg2+ binding site [ion binding]; other site 1408186005024 G-X-G motif; other site 1408186005025 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1408186005026 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 1408186005027 active site 1408186005028 phosphorylation site [posttranslational modification] 1408186005029 intermolecular recognition site; other site 1408186005030 dimerization interface [polypeptide binding]; other site 1408186005031 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 1408186005032 DNA binding site [nucleotide binding] 1408186005033 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408186005034 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1408186005035 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1408186005036 Walker A/P-loop; other site 1408186005037 ATP binding site [chemical binding]; other site 1408186005038 Q-loop/lid; other site 1408186005039 ABC transporter signature motif; other site 1408186005040 Walker B; other site 1408186005041 D-loop; other site 1408186005042 H-loop/switch region; other site 1408186005043 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1408186005044 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408186005045 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186005046 Walker A/P-loop; other site 1408186005047 ATP binding site [chemical binding]; other site 1408186005048 Q-loop/lid; other site 1408186005049 ABC transporter signature motif; other site 1408186005050 Walker B; other site 1408186005051 D-loop; other site 1408186005052 H-loop/switch region; other site 1408186005053 Protein of unknown function (DUF1129); Region: DUF1129; pfam06570 1408186005054 GTP-binding protein YchF; Reviewed; Region: PRK09601 1408186005055 YchF GTPase; Region: YchF; cd01900 1408186005056 G1 box; other site 1408186005057 GTP/Mg2+ binding site [chemical binding]; other site 1408186005058 Switch I region; other site 1408186005059 G2 box; other site 1408186005060 Switch II region; other site 1408186005061 G3 box; other site 1408186005062 G4 box; other site 1408186005063 G5 box; other site 1408186005064 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 1408186005065 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 1408186005066 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1408186005067 ParB-like nuclease domain; Region: ParB; smart00470 1408186005068 KorB domain; Region: KorB; pfam08535 1408186005069 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1408186005070 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 1408186005071 P-loop; other site 1408186005072 Magnesium ion binding site [ion binding]; other site 1408186005073 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 1408186005074 Magnesium ion binding site [ion binding]; other site 1408186005075 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 1408186005076 ParB-like nuclease domain; Region: ParB; smart00470 1408186005077 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1408186005078 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 1408186005079 S-adenosylmethionine binding site [chemical binding]; other site 1408186005080 Colicin V production protein; Region: Colicin_V; pfam02674 1408186005081 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1408186005082 ApbE family; Region: ApbE; pfam02424 1408186005083 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 1408186005084 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 1408186005085 Uncharacterized conserved protein [Function unknown]; Region: COG3589 1408186005086 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 1408186005087 Predicted flavoprotein [General function prediction only]; Region: COG0431 1408186005088 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1408186005089 Predicted flavoprotein [General function prediction only]; Region: COG0431 1408186005090 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1408186005091 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1408186005092 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1408186005093 putative active site [active] 1408186005094 putative NTP binding site [chemical binding]; other site 1408186005095 putative nucleic acid binding site [nucleotide binding]; other site 1408186005096 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1408186005097 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1408186005098 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1408186005099 WHG domain; Region: WHG; pfam13305 1408186005100 Peptidase family C69; Region: Peptidase_C69; pfam03577 1408186005101 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1408186005102 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1408186005103 Walker A/P-loop; other site 1408186005104 ATP binding site [chemical binding]; other site 1408186005105 Q-loop/lid; other site 1408186005106 ABC transporter signature motif; other site 1408186005107 Walker B; other site 1408186005108 D-loop; other site 1408186005109 H-loop/switch region; other site 1408186005110 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1408186005111 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1408186005112 FtsX-like permease family; Region: FtsX; pfam02687 1408186005113 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1408186005114 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1408186005115 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 1408186005116 catalytic core [active] 1408186005117 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 1408186005118 catalytic core [active] 1408186005119 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1408186005120 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1408186005121 catalytic site [active] 1408186005122 hypothetical protein; Validated; Region: PRK02101 1408186005123 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 1408186005124 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 1408186005125 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1408186005126 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 1408186005127 putative active site [active] 1408186005128 catalytic site [active] 1408186005129 putative metal binding site [ion binding]; other site 1408186005130 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1408186005131 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1408186005132 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1408186005133 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 1408186005134 putative active site [active] 1408186005135 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 1408186005136 nucleotide binding site/active site [active] 1408186005137 HIT family signature motif; other site 1408186005138 catalytic residue [active] 1408186005139 Class I aldolases; Region: Aldolase_Class_I; cl17187 1408186005140 drug efflux system protein MdtG; Provisional; Region: PRK09874 1408186005141 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 1408186005142 putative substrate translocation pore; other site 1408186005143 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1408186005144 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1408186005145 catalytic triad [active] 1408186005146 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1408186005147 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408186005148 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1408186005149 Walker A/P-loop; other site 1408186005150 ATP binding site [chemical binding]; other site 1408186005151 Q-loop/lid; other site 1408186005152 ABC transporter signature motif; other site 1408186005153 Walker B; other site 1408186005154 D-loop; other site 1408186005155 H-loop/switch region; other site 1408186005156 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 1408186005157 putative ADP-ribose binding site [chemical binding]; other site 1408186005158 putative active site [active] 1408186005159 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1408186005160 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1408186005161 Helix-turn-helix domain; Region: HTH_38; pfam13936 1408186005162 Integrase core domain; Region: rve; pfam00665 1408186005163 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1408186005164 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1408186005165 Walker A/P-loop; other site 1408186005166 ATP binding site [chemical binding]; other site 1408186005167 Q-loop/lid; other site 1408186005168 ABC transporter signature motif; other site 1408186005169 Walker B; other site 1408186005170 D-loop; other site 1408186005171 H-loop/switch region; other site 1408186005172 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408186005173 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1408186005174 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1408186005175 Walker A/P-loop; other site 1408186005176 ATP binding site [chemical binding]; other site 1408186005177 Q-loop/lid; other site 1408186005178 ABC transporter signature motif; other site 1408186005179 Walker B; other site 1408186005180 D-loop; other site 1408186005181 H-loop/switch region; other site 1408186005182 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1408186005183 Helix-turn-helix domain; Region: HTH_38; pfam13936 1408186005184 Integrase core domain; Region: rve; pfam00665 1408186005185 Helix-turn-helix domain; Region: HTH_19; pfam12844 1408186005186 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1408186005187 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 1408186005188 active site turn [active] 1408186005189 phosphorylation site [posttranslational modification] 1408186005190 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1408186005191 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 1408186005192 HPr interaction site; other site 1408186005193 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1408186005194 active site 1408186005195 phosphorylation site [posttranslational modification] 1408186005196 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 1408186005197 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1408186005198 substrate binding [chemical binding]; other site 1408186005199 active site 1408186005200 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1408186005201 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1408186005202 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1408186005203 DNA binding site [nucleotide binding] 1408186005204 domain linker motif; other site 1408186005205 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 1408186005206 dimerization interface [polypeptide binding]; other site 1408186005207 ligand binding site [chemical binding]; other site 1408186005208 sodium binding site [ion binding]; other site 1408186005209 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 1408186005210 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 1408186005211 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 1408186005212 substrate binding site [chemical binding]; other site 1408186005213 dimer interface [polypeptide binding]; other site 1408186005214 ATP binding site [chemical binding]; other site 1408186005215 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1408186005216 catalytic triad [active] 1408186005217 EamA-like transporter family; Region: EamA; pfam00892 1408186005218 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1408186005219 EamA-like transporter family; Region: EamA; pfam00892 1408186005220 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408186005221 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1408186005222 Helix-turn-helix domain; Region: HTH_38; pfam13936 1408186005223 Integrase core domain; Region: rve; pfam00665 1408186005224 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 1408186005225 dimer interface [polypeptide binding]; other site 1408186005226 active site 1408186005227 Amino acid permease; Region: AA_permease_2; pfam13520 1408186005228 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1408186005229 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1408186005230 catalytic triad [active] 1408186005231 HTH-like domain; Region: HTH_21; pfam13276 1408186005232 Integrase core domain; Region: rve; pfam00665 1408186005233 Integrase core domain; Region: rve_2; pfam13333 1408186005234 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1408186005235 Transposase; Region: HTH_Tnp_1; cl17663 1408186005236 Helix-turn-helix domain; Region: HTH_28; pfam13518 1408186005237 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1408186005238 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1408186005239 Domain of unknown function (DUF956); Region: DUF956; pfam06115 1408186005240 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1408186005241 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1408186005242 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1408186005243 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 1408186005244 active pocket/dimerization site; other site 1408186005245 active site 1408186005246 phosphorylation site [posttranslational modification] 1408186005247 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 1408186005248 active site 1408186005249 phosphorylation site [posttranslational modification] 1408186005250 amino acid transporter; Region: 2A0306; TIGR00909 1408186005251 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1408186005252 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 1408186005253 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1408186005254 Walker A motif; other site 1408186005255 ATP binding site [chemical binding]; other site 1408186005256 Walker B motif; other site 1408186005257 arginine finger; other site 1408186005258 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 1408186005259 Walker A motif; other site 1408186005260 ATP binding site [chemical binding]; other site 1408186005261 Walker B motif; other site 1408186005262 arginine finger; other site 1408186005263 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1408186005264 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 1408186005265 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1408186005266 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 1408186005267 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1408186005268 putative substrate translocation pore; other site 1408186005269 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1408186005270 Beta-lactamase; Region: Beta-lactamase; pfam00144 1408186005271 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 1408186005272 DltD N-terminal region; Region: DltD_N; pfam04915 1408186005273 DltD central region; Region: DltD_M; pfam04918 1408186005274 DltD C-terminal region; Region: DltD_C; pfam04914 1408186005275 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 1408186005276 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 1408186005277 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 1408186005278 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 1408186005279 acyl-activating enzyme (AAE) consensus motif; other site 1408186005280 AMP binding site [chemical binding]; other site 1408186005281 FOG: CBS domain [General function prediction only]; Region: COG0517 1408186005282 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 1408186005283 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 1408186005284 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1408186005285 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1408186005286 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1408186005287 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1408186005288 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1408186005289 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408186005290 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1408186005291 Walker A/P-loop; other site 1408186005292 ATP binding site [chemical binding]; other site 1408186005293 Q-loop/lid; other site 1408186005294 ABC transporter signature motif; other site 1408186005295 Walker B; other site 1408186005296 D-loop; other site 1408186005297 H-loop/switch region; other site 1408186005298 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 1408186005299 non-specific DNA binding site [nucleotide binding]; other site 1408186005300 salt bridge; other site 1408186005301 sequence-specific DNA binding site [nucleotide binding]; other site 1408186005302 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1408186005303 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 1408186005304 putative substrate binding pocket [chemical binding]; other site 1408186005305 AC domain interface; other site 1408186005306 catalytic triad [active] 1408186005307 AB domain interface; other site 1408186005308 interchain disulfide; other site 1408186005309 Predicted membrane protein [Function unknown]; Region: COG3817 1408186005310 Protein of unknown function (DUF979); Region: DUF979; pfam06166 1408186005311 Protein of unknown function (DUF969); Region: DUF969; pfam06149 1408186005312 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1408186005313 Helix-turn-helix domain; Region: HTH_38; pfam13936 1408186005314 Integrase core domain; Region: rve; pfam00665 1408186005315 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1408186005316 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 1408186005317 PTS system sugar-specific permease component; Region: EIIC-GAT; pfam03611 1408186005318 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 1408186005319 CAAX protease self-immunity; Region: Abi; pfam02517 1408186005320 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1408186005321 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 1408186005322 putative active site [active] 1408186005323 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1408186005324 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1408186005325 Walker A/P-loop; other site 1408186005326 ATP binding site [chemical binding]; other site 1408186005327 Q-loop/lid; other site 1408186005328 ABC transporter signature motif; other site 1408186005329 Walker B; other site 1408186005330 D-loop; other site 1408186005331 H-loop/switch region; other site 1408186005332 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1408186005333 FtsX-like permease family; Region: FtsX; pfam02687 1408186005334 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1408186005335 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1408186005336 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1408186005337 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 1408186005338 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408186005339 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186005340 Walker A/P-loop; other site 1408186005341 ATP binding site [chemical binding]; other site 1408186005342 Q-loop/lid; other site 1408186005343 ABC transporter signature motif; other site 1408186005344 Walker B; other site 1408186005345 D-loop; other site 1408186005346 H-loop/switch region; other site 1408186005347 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 1408186005348 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 1408186005349 Walker A/P-loop; other site 1408186005350 ATP binding site [chemical binding]; other site 1408186005351 Q-loop/lid; other site 1408186005352 ABC transporter signature motif; other site 1408186005353 Walker B; other site 1408186005354 D-loop; other site 1408186005355 H-loop/switch region; other site 1408186005356 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 1408186005357 UbiA prenyltransferase family; Region: UbiA; pfam01040 1408186005358 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1408186005359 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 1408186005360 substrate binding pocket [chemical binding]; other site 1408186005361 membrane-bound complex binding site; other site 1408186005362 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1408186005363 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 1408186005364 ligand binding site [chemical binding]; other site 1408186005365 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1408186005366 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1408186005367 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 1408186005368 putative active site [active] 1408186005369 Uncharacterized conserved protein [Function unknown]; Region: COG3589 1408186005370 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 1408186005371 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1408186005372 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 1408186005373 putative active site [active] 1408186005374 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1408186005375 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 1408186005376 active site turn [active] 1408186005377 phosphorylation site [posttranslational modification] 1408186005378 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1408186005379 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1408186005380 HPr interaction site; other site 1408186005381 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1408186005382 active site 1408186005383 phosphorylation site [posttranslational modification] 1408186005384 hypothetical protein; Provisional; Region: PRK10621 1408186005385 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1408186005386 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 1408186005387 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1408186005388 active site 1408186005389 catalytic tetrad [active] 1408186005390 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1408186005391 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 1408186005392 active site 1408186005393 trimer interface [polypeptide binding]; other site 1408186005394 allosteric site; other site 1408186005395 active site lid [active] 1408186005396 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1408186005397 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1408186005398 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 1408186005399 Substrate-binding site [chemical binding]; other site 1408186005400 Substrate specificity [chemical binding]; other site 1408186005401 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1408186005402 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 1408186005403 Substrate-binding site [chemical binding]; other site 1408186005404 Substrate specificity [chemical binding]; other site 1408186005405 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 1408186005406 teramer interface [polypeptide binding]; other site 1408186005407 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 1408186005408 active site 1408186005409 FMN binding site [chemical binding]; other site 1408186005410 catalytic residues [active] 1408186005411 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1408186005412 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1408186005413 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1408186005414 DNA binding residues [nucleotide binding] 1408186005415 dimer interface [polypeptide binding]; other site 1408186005416 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1408186005417 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 1408186005418 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1408186005419 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 1408186005420 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1408186005421 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 1408186005422 non-specific DNA binding site [nucleotide binding]; other site 1408186005423 salt bridge; other site 1408186005424 sequence-specific DNA binding site [nucleotide binding]; other site 1408186005425 Protein of unknown function (DUF3955); Region: DUF3955; pfam13127 1408186005426 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 1408186005427 active site 1408186005428 catalytic residues [active] 1408186005429 metal binding site [ion binding]; metal-binding site 1408186005430 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 1408186005431 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1408186005432 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1408186005433 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1408186005434 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1408186005435 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1408186005436 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 1408186005437 motif II; other site 1408186005438 Amino acid permease; Region: AA_permease_2; pfam13520 1408186005439 putative ornithine decarboxylase; Region: lacto_ODC_hypo; TIGR04318 1408186005440 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 1408186005441 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1408186005442 catalytic residue [active] 1408186005443 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1408186005444 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 1408186005445 Aluminium resistance protein; Region: Alum_res; pfam06838 1408186005446 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1408186005447 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408186005448 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1408186005449 Coenzyme A binding pocket [chemical binding]; other site 1408186005450 benzoate transport; Region: 2A0115; TIGR00895 1408186005451 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 1408186005452 MutS domain III; Region: MutS_III; pfam05192 1408186005453 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408186005454 Walker A/P-loop; other site 1408186005455 ATP binding site [chemical binding]; other site 1408186005456 Q-loop/lid; other site 1408186005457 ABC transporter signature motif; other site 1408186005458 Walker B; other site 1408186005459 D-loop; other site 1408186005460 H-loop/switch region; other site 1408186005461 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1408186005462 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 1408186005463 Cl- selectivity filter; other site 1408186005464 Cl- binding residues [ion binding]; other site 1408186005465 pore gating glutamate residue; other site 1408186005466 dimer interface [polypeptide binding]; other site 1408186005467 H+/Cl- coupling transport residue; other site 1408186005468 TrkA-C domain; Region: TrkA_C; pfam02080 1408186005469 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1408186005470 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1408186005471 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1408186005472 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 1408186005473 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1408186005474 PYR/PP interface [polypeptide binding]; other site 1408186005475 dimer interface [polypeptide binding]; other site 1408186005476 tetramer interface [polypeptide binding]; other site 1408186005477 TPP binding site [chemical binding]; other site 1408186005478 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1408186005479 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 1408186005480 TPP-binding site [chemical binding]; other site 1408186005481 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1408186005482 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1408186005483 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1408186005484 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1408186005485 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1408186005486 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1408186005487 G1 box; other site 1408186005488 GTP/Mg2+ binding site [chemical binding]; other site 1408186005489 Switch I region; other site 1408186005490 G2 box; other site 1408186005491 Switch II region; other site 1408186005492 G3 box; other site 1408186005493 G4 box; other site 1408186005494 G5 box; other site 1408186005495 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1408186005496 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 1408186005497 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1408186005498 ribonuclease P; Reviewed; Region: rnpA; PRK00499 1408186005499 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399