-- dump date 20140619_123704 -- class Genbank::misc_feature -- table misc_feature_note -- id note 909954000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 909954000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 909954000003 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 909954000004 Walker A motif; other site 909954000005 ATP binding site [chemical binding]; other site 909954000006 Walker B motif; other site 909954000007 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 909954000008 arginine finger; other site 909954000009 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 909954000010 DnaA box-binding interface [nucleotide binding]; other site 909954000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 909954000012 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 909954000013 putative DNA binding surface [nucleotide binding]; other site 909954000014 dimer interface [polypeptide binding]; other site 909954000015 beta-clamp/clamp loader binding surface; other site 909954000016 beta-clamp/translesion DNA polymerase binding surface; other site 909954000017 S4 domain; Region: S4_2; pfam13275 909954000018 recombination protein F; Reviewed; Region: recF; PRK00064 909954000019 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 909954000020 Walker A/P-loop; other site 909954000021 ATP binding site [chemical binding]; other site 909954000022 Q-loop/lid; other site 909954000023 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954000024 ABC transporter signature motif; other site 909954000025 Walker B; other site 909954000026 D-loop; other site 909954000027 H-loop/switch region; other site 909954000028 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 909954000029 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 909954000030 Mg2+ binding site [ion binding]; other site 909954000031 G-X-G motif; other site 909954000032 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 909954000033 anchoring element; other site 909954000034 dimer interface [polypeptide binding]; other site 909954000035 ATP binding site [chemical binding]; other site 909954000036 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 909954000037 active site 909954000038 putative metal-binding site [ion binding]; other site 909954000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 909954000040 DNA gyrase subunit A; Validated; Region: PRK05560 909954000041 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 909954000042 CAP-like domain; other site 909954000043 active site 909954000044 primary dimer interface [polypeptide binding]; other site 909954000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 909954000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 909954000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 909954000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 909954000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 909954000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 909954000051 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 909954000052 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 909954000053 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 909954000054 dimer interface [polypeptide binding]; other site 909954000055 ssDNA binding site [nucleotide binding]; other site 909954000056 tetramer (dimer of dimers) interface [polypeptide binding]; other site 909954000057 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 909954000058 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 909954000059 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 909954000060 Cl binding site [ion binding]; other site 909954000061 oligomer interface [polypeptide binding]; other site 909954000062 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 909954000063 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 909954000064 DHH family; Region: DHH; pfam01368 909954000065 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 909954000066 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 909954000067 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 909954000068 replicative DNA helicase; Region: DnaB; TIGR00665 909954000069 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 909954000070 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 909954000071 Walker A motif; other site 909954000072 ATP binding site [chemical binding]; other site 909954000073 Walker B motif; other site 909954000074 DNA binding loops [nucleotide binding] 909954000075 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 909954000076 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 909954000077 nucleotide binding site [chemical binding]; other site 909954000078 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 909954000079 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 909954000080 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 909954000081 Sterol carrier protein domain; Region: SCP2_2; pfam13530 909954000082 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 909954000083 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 909954000084 putative acyl-acceptor binding pocket; other site 909954000085 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 909954000086 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 909954000087 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 909954000088 putative substrate translocation pore; other site 909954000089 Bacterial surface layer protein; Region: SLAP; pfam03217 909954000090 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 909954000091 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 909954000092 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 909954000093 Transposase; Region: DDE_Tnp_ISL3; pfam01610 909954000094 Ribosomal RNA adenine dimethylase; Region: RrnaAD; pfam00398 909954000095 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 909954000096 S-adenosylmethionine binding site [chemical binding]; other site 909954000097 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 909954000098 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 909954000099 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 909954000100 NADH(P)-binding; Region: NAD_binding_10; pfam13460 909954000101 NAD(P) binding site [chemical binding]; other site 909954000102 active site 909954000103 Protein of unknown function (DUF975); Region: DUF975; cl10504 909954000104 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 909954000105 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 909954000106 motif II; other site 909954000107 EDD domain protein, DegV family; Region: DegV; TIGR00762 909954000108 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 909954000109 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 909954000110 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 909954000111 G1 box; other site 909954000112 putative GEF interaction site [polypeptide binding]; other site 909954000113 GTP/Mg2+ binding site [chemical binding]; other site 909954000114 Switch I region; other site 909954000115 G2 box; other site 909954000116 G3 box; other site 909954000117 Switch II region; other site 909954000118 G4 box; other site 909954000119 G5 box; other site 909954000120 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 909954000121 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 909954000122 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 909954000123 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 909954000124 Penicillinase repressor; Region: Pencillinase_R; pfam03965 909954000125 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 909954000126 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 909954000127 Soluble P-type ATPase [General function prediction only]; Region: COG4087 909954000128 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 909954000129 Transposase; Region: DDE_Tnp_ISL3; pfam01610 909954000130 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 909954000131 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 909954000132 Cl- selectivity filter; other site 909954000133 Cl- binding residues [ion binding]; other site 909954000134 pore gating glutamate residue; other site 909954000135 dimer interface [polypeptide binding]; other site 909954000136 H+/Cl- coupling transport residue; other site 909954000137 H+ Antiporter protein; Region: 2A0121; TIGR00900 909954000138 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 909954000139 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 909954000140 Integrase core domain; Region: rve; pfam00665 909954000141 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 909954000142 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 909954000143 Cl binding site [ion binding]; other site 909954000144 oligomer interface [polypeptide binding]; other site 909954000145 CsbD-like; Region: CsbD; cl17424 909954000146 Predicted membrane protein [Function unknown]; Region: COG2261 909954000147 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 909954000148 active site 909954000149 putative catalytic site [active] 909954000150 DNA binding site [nucleotide binding] 909954000151 putative phosphate binding site [ion binding]; other site 909954000152 metal binding site A [ion binding]; metal-binding site 909954000153 AP binding site [nucleotide binding]; other site 909954000154 metal binding site B [ion binding]; metal-binding site 909954000155 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 909954000156 PLD-like domain; Region: PLDc_2; pfam13091 909954000157 putative homodimer interface [polypeptide binding]; other site 909954000158 putative active site [active] 909954000159 catalytic site [active] 909954000160 DEAD-like helicases superfamily; Region: DEXDc; smart00487 909954000161 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 909954000162 ATP binding site [chemical binding]; other site 909954000163 putative Mg++ binding site [ion binding]; other site 909954000164 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 909954000165 nucleotide binding region [chemical binding]; other site 909954000166 ATP-binding site [chemical binding]; other site 909954000167 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 909954000168 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 909954000169 Protein of unknown function (DUF3923); Region: DUF3923; pfam13061 909954000170 Domain of unknown function DUF20; Region: UPF0118; pfam01594 909954000171 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 909954000172 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 909954000173 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909954000174 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954000175 Walker A/P-loop; other site 909954000176 ATP binding site [chemical binding]; other site 909954000177 Q-loop/lid; other site 909954000178 ABC transporter signature motif; other site 909954000179 Walker B; other site 909954000180 D-loop; other site 909954000181 H-loop/switch region; other site 909954000182 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 909954000183 Catalytic domain of Protein Kinases; Region: PKc; cd00180 909954000184 active site 909954000185 ATP binding site [chemical binding]; other site 909954000186 substrate binding site [chemical binding]; other site 909954000187 activation loop (A-loop); other site 909954000188 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 909954000189 active site 909954000190 zinc binding site [ion binding]; other site 909954000191 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 909954000192 LytTr DNA-binding domain; Region: LytTR; pfam04397 909954000193 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 909954000194 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 909954000195 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 909954000196 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 909954000197 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK06843 909954000198 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 909954000199 active site 909954000200 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 909954000201 catalytic triad [active] 909954000202 oxyanion hole [active] 909954000203 active site 909954000204 D-lactate dehydrogenase; Validated; Region: PRK08605 909954000205 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 909954000206 homodimer interface [polypeptide binding]; other site 909954000207 ligand binding site [chemical binding]; other site 909954000208 NAD binding site [chemical binding]; other site 909954000209 catalytic site [active] 909954000210 MucBP domain; Region: MucBP; pfam06458 909954000211 MucBP domain; Region: MucBP; pfam06458 909954000212 MucBP domain; Region: MucBP; pfam06458 909954000213 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 909954000214 Transcriptional regulator [Transcription]; Region: LysR; COG0583 909954000215 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 909954000216 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 909954000217 dimerization interface [polypeptide binding]; other site 909954000218 FMN-binding domain; Region: FMN_bind; pfam04205 909954000219 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 909954000220 L-aspartate oxidase; Provisional; Region: PRK06175 909954000221 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 909954000222 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 909954000223 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 909954000224 S-adenosylmethionine binding site [chemical binding]; other site 909954000225 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 909954000226 Predicted membrane protein [Function unknown]; Region: COG3212 909954000227 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 909954000228 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 909954000229 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 909954000230 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 909954000231 active site 909954000232 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 909954000233 putative substrate translocation pore; other site 909954000234 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 909954000235 putative substrate translocation pore; other site 909954000236 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 909954000237 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 909954000238 putative acyl-acceptor binding pocket; other site 909954000239 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 909954000240 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 909954000241 Ligand binding site; other site 909954000242 metal-binding site 909954000243 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 909954000244 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 909954000245 Ligand binding site; other site 909954000246 metal-binding site 909954000247 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 909954000248 Ligand binding site; other site 909954000249 metal-binding site 909954000250 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 909954000251 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 909954000252 active site 909954000253 phosphorylation site [posttranslational modification] 909954000254 intermolecular recognition site; other site 909954000255 dimerization interface [polypeptide binding]; other site 909954000256 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 909954000257 DNA binding site [nucleotide binding] 909954000258 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 909954000259 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 909954000260 dimerization interface [polypeptide binding]; other site 909954000261 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 909954000262 putative active site [active] 909954000263 heme pocket [chemical binding]; other site 909954000264 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 909954000265 dimer interface [polypeptide binding]; other site 909954000266 phosphorylation site [posttranslational modification] 909954000267 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 909954000268 ATP binding site [chemical binding]; other site 909954000269 Mg2+ binding site [ion binding]; other site 909954000270 G-X-G motif; other site 909954000271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 909954000272 YycH protein; Region: YycH; pfam07435 909954000273 YycH protein; Region: YycI; pfam09648 909954000274 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 909954000275 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 909954000276 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 909954000277 protein binding site [polypeptide binding]; other site 909954000278 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 909954000279 Cobalt transport protein; Region: CbiQ; cl00463 909954000280 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 909954000281 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 909954000282 Walker A/P-loop; other site 909954000283 ATP binding site [chemical binding]; other site 909954000284 Q-loop/lid; other site 909954000285 ABC transporter signature motif; other site 909954000286 Walker B; other site 909954000287 D-loop; other site 909954000288 H-loop/switch region; other site 909954000289 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 909954000290 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 909954000291 Walker A/P-loop; other site 909954000292 ATP binding site [chemical binding]; other site 909954000293 Q-loop/lid; other site 909954000294 ABC transporter signature motif; other site 909954000295 Walker B; other site 909954000296 D-loop; other site 909954000297 H-loop/switch region; other site 909954000298 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 909954000299 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 909954000300 heat shock protein HtpX; Provisional; Region: PRK04897 909954000301 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 909954000302 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 909954000303 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 909954000304 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 909954000305 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 909954000306 DXD motif; other site 909954000307 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 909954000308 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 909954000309 Zn2+ binding site [ion binding]; other site 909954000310 Mg2+ binding site [ion binding]; other site 909954000311 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 909954000312 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 909954000313 active site 909954000314 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 909954000315 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 909954000316 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 909954000317 Walker A/P-loop; other site 909954000318 ATP binding site [chemical binding]; other site 909954000319 Q-loop/lid; other site 909954000320 ABC transporter signature motif; other site 909954000321 Walker B; other site 909954000322 D-loop; other site 909954000323 H-loop/switch region; other site 909954000324 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 909954000325 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 909954000326 substrate binding pocket [chemical binding]; other site 909954000327 membrane-bound complex binding site; other site 909954000328 hinge residues; other site 909954000329 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 909954000330 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 909954000331 dimer interface [polypeptide binding]; other site 909954000332 conserved gate region; other site 909954000333 putative PBP binding loops; other site 909954000334 ABC-ATPase subunit interface; other site 909954000335 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 909954000336 active site 909954000337 DNA binding site [nucleotide binding] 909954000338 Protein of unknown function, DUF488; Region: DUF488; cl01246 909954000339 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 909954000340 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 909954000341 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 909954000342 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 909954000343 DNA binding site [nucleotide binding] 909954000344 active site 909954000345 NAD-dependent deacetylase; Provisional; Region: PRK00481 909954000346 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 909954000347 NAD+ binding site [chemical binding]; other site 909954000348 substrate binding site [chemical binding]; other site 909954000349 putative Zn binding site [ion binding]; other site 909954000350 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 909954000351 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 909954000352 putative active site [active] 909954000353 catalytic site [active] 909954000354 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 909954000355 putative active site [active] 909954000356 catalytic site [active] 909954000357 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 909954000358 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 909954000359 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 909954000360 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 909954000361 RNA/DNA hybrid binding site [nucleotide binding]; other site 909954000362 active site 909954000363 Predicted secreted protein [Function unknown]; Region: COG4086 909954000364 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 909954000365 putative glycosyl transferase; Provisional; Region: PRK10073 909954000366 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 909954000367 active site 909954000368 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 909954000369 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 909954000370 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 909954000371 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 909954000372 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 909954000373 active site 909954000374 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 909954000375 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 909954000376 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 909954000377 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 909954000378 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 909954000379 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 909954000380 ATP-grasp domain; Region: ATP-grasp_4; cl17255 909954000381 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 909954000382 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 909954000383 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 909954000384 putative active site [active] 909954000385 putative NTP binding site [chemical binding]; other site 909954000386 putative nucleic acid binding site [nucleotide binding]; other site 909954000387 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 909954000388 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 909954000389 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 909954000390 YibE/F-like protein; Region: YibE_F; pfam07907 909954000391 YibE/F-like protein; Region: YibE_F; pfam07907 909954000392 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 909954000393 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 909954000394 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 909954000395 active site 909954000396 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 909954000397 catalytic site [active] 909954000398 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 909954000399 Interdomain contacts; other site 909954000400 Cytokine receptor motif; other site 909954000401 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 909954000402 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 909954000403 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 909954000404 DNA-binding site [nucleotide binding]; DNA binding site 909954000405 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 909954000406 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 909954000407 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 909954000408 dimer interface [polypeptide binding]; other site 909954000409 active site 909954000410 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 909954000411 putative active site [active] 909954000412 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 909954000413 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 909954000414 active site 909954000415 dimer interface [polypeptide binding]; other site 909954000416 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 909954000417 active site 909954000418 phosphorylation site [posttranslational modification] 909954000419 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 909954000420 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 909954000421 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 909954000422 active pocket/dimerization site; other site 909954000423 active site 909954000424 phosphorylation site [posttranslational modification] 909954000425 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 909954000426 Double zinc ribbon; Region: DZR; pfam12773 909954000427 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 909954000428 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 909954000429 active site 909954000430 phosphorylation site [posttranslational modification] 909954000431 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 909954000432 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 909954000433 DNA-binding site [nucleotide binding]; DNA binding site 909954000434 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 909954000435 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 909954000436 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 909954000437 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 909954000438 Ligand Binding Site [chemical binding]; other site 909954000439 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 909954000440 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 909954000441 membrane-bound complex binding site; other site 909954000442 hinge residues; other site 909954000443 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 909954000444 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 909954000445 Walker A/P-loop; other site 909954000446 ATP binding site [chemical binding]; other site 909954000447 Q-loop/lid; other site 909954000448 ABC transporter signature motif; other site 909954000449 Walker B; other site 909954000450 D-loop; other site 909954000451 H-loop/switch region; other site 909954000452 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 909954000453 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 909954000454 dimer interface [polypeptide binding]; other site 909954000455 conserved gate region; other site 909954000456 ABC-ATPase subunit interface; other site 909954000457 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 909954000458 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 909954000459 dimer interface [polypeptide binding]; other site 909954000460 conserved gate region; other site 909954000461 putative PBP binding loops; other site 909954000462 ABC-ATPase subunit interface; other site 909954000463 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 909954000464 active site 909954000465 metal binding site [ion binding]; metal-binding site 909954000466 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 909954000467 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 909954000468 active site 909954000469 dimer interface [polypeptide binding]; other site 909954000470 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 909954000471 Ligand Binding Site [chemical binding]; other site 909954000472 Molecular Tunnel; other site 909954000473 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 909954000474 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 909954000475 ATP-grasp domain; Region: ATP-grasp_4; cl17255 909954000476 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 909954000477 ATP cone domain; Region: ATP-cone; pfam03477 909954000478 Class III ribonucleotide reductase; Region: RNR_III; cd01675 909954000479 effector binding site; other site 909954000480 active site 909954000481 Zn binding site [ion binding]; other site 909954000482 glycine loop; other site 909954000483 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 909954000484 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 909954000485 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 909954000486 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 909954000487 Uncharacterized conserved protein [Function unknown]; Region: COG2461 909954000488 Family of unknown function (DUF438); Region: DUF438; pfam04282 909954000489 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 909954000490 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 909954000491 Major Facilitator Superfamily; Region: MFS_1; pfam07690 909954000492 putative substrate translocation pore; other site 909954000493 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12858 909954000494 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 909954000495 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 909954000496 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 909954000497 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 909954000498 putative active site [active] 909954000499 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 909954000500 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 909954000501 putative substrate binding site [chemical binding]; other site 909954000502 putative ATP binding site [chemical binding]; other site 909954000503 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 909954000504 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 909954000505 active site 909954000506 P-loop; other site 909954000507 phosphorylation site [posttranslational modification] 909954000508 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 909954000509 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 909954000510 active site 909954000511 phosphorylation site [posttranslational modification] 909954000512 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 909954000513 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 909954000514 active site 909954000515 Zn binding site [ion binding]; other site 909954000516 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 909954000517 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 909954000518 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 909954000519 active site 909954000520 metal-binding site [ion binding] 909954000521 nucleotide-binding site [chemical binding]; other site 909954000522 K+ potassium transporter; Region: K_trans; pfam02705 909954000523 K+ potassium transporter; Region: K_trans; pfam02705 909954000524 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 909954000525 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 909954000526 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 909954000527 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 909954000528 active site 909954000529 Bacterial SH3 domain; Region: SH3_5; pfam08460 909954000530 Bacterial SH3 domain; Region: SH3_5; pfam08460 909954000531 Bacterial SH3 domain; Region: SH3_5; pfam08460 909954000532 Bacterial SH3 domain; Region: SH3_5; pfam08460 909954000533 Bacterial SH3 domain; Region: SH3_5; pfam08460 909954000534 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 909954000535 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 909954000536 putative substrate binding site [chemical binding]; other site 909954000537 putative ATP binding site [chemical binding]; other site 909954000538 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 909954000539 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 909954000540 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 909954000541 TrkA-N domain; Region: TrkA_N; pfam02254 909954000542 TrkA-C domain; Region: TrkA_C; pfam02080 909954000543 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 909954000544 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 909954000545 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 909954000546 PAS domain; Region: PAS_10; pfam13596 909954000547 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 909954000548 catalytic core [active] 909954000549 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 909954000550 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 909954000551 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 909954000552 GtrA-like protein; Region: GtrA; pfam04138 909954000553 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 909954000554 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 909954000555 Ligand binding site; other site 909954000556 Putative Catalytic site; other site 909954000557 DXD motif; other site 909954000558 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 909954000559 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 909954000560 putative substrate translocation pore; other site 909954000561 Sugar transport protein; Region: Sugar_transport; pfam06800 909954000562 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 909954000563 active site 909954000564 catalytic residues [active] 909954000565 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 909954000566 membrane protein; Provisional; Region: PRK14411 909954000567 Sulfatase; Region: Sulfatase; cl17466 909954000568 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 909954000569 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 909954000570 active site 909954000571 HIGH motif; other site 909954000572 dimer interface [polypeptide binding]; other site 909954000573 KMSKS motif; other site 909954000574 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 909954000575 RNA binding surface [nucleotide binding]; other site 909954000576 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 909954000577 trimer interface [polypeptide binding]; other site 909954000578 active site 909954000579 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 909954000580 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 909954000581 trimer interface [polypeptide binding]; other site 909954000582 active site 909954000583 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 909954000584 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 909954000585 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 909954000586 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 909954000587 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 909954000588 putative dimer interface [polypeptide binding]; other site 909954000589 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 909954000590 beta-galactosidase; Region: BGL; TIGR03356 909954000591 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 909954000592 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 909954000593 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 909954000594 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 909954000595 DNA-binding site [nucleotide binding]; DNA binding site 909954000596 UTRA domain; Region: UTRA; pfam07702 909954000597 Domain of unknown function (DUF3284); Region: DUF3284; pfam11687 909954000598 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 909954000599 beta-galactosidase; Region: BGL; TIGR03356 909954000600 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 909954000601 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 909954000602 DNA-binding site [nucleotide binding]; DNA binding site 909954000603 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 909954000604 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 909954000605 methionine cluster; other site 909954000606 active site 909954000607 phosphorylation site [posttranslational modification] 909954000608 metal binding site [ion binding]; metal-binding site 909954000609 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 909954000610 active site 909954000611 P-loop; other site 909954000612 phosphorylation site [posttranslational modification] 909954000613 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 909954000614 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 909954000615 beta-galactosidase; Region: BGL; TIGR03356 909954000616 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 909954000617 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 909954000618 nucleotide binding site [chemical binding]; other site 909954000619 CAAX protease self-immunity; Region: Abi; pfam02517 909954000620 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 909954000621 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 909954000622 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 909954000623 active site 909954000624 HIGH motif; other site 909954000625 dimer interface [polypeptide binding]; other site 909954000626 KMSKS motif; other site 909954000627 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 909954000628 catalytic motif [active] 909954000629 Zn binding site [ion binding]; other site 909954000630 Repair protein; Region: Repair_PSII; cl01535 909954000631 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 909954000632 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 909954000633 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 909954000634 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 909954000635 active site 909954000636 HIGH motif; other site 909954000637 KMSKS motif; other site 909954000638 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 909954000639 tRNA binding surface [nucleotide binding]; other site 909954000640 anticodon binding site; other site 909954000641 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 909954000642 dimer interface [polypeptide binding]; other site 909954000643 putative tRNA-binding site [nucleotide binding]; other site 909954000644 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 909954000645 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 909954000646 active site 909954000647 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 909954000648 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 909954000649 putative active site [active] 909954000650 putative metal binding site [ion binding]; other site 909954000651 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 909954000652 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 909954000653 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 909954000654 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 909954000655 pur operon repressor; Provisional; Region: PRK09213 909954000656 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 909954000657 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 909954000658 active site 909954000659 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 909954000660 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 909954000661 Substrate binding site; other site 909954000662 Mg++ binding site; other site 909954000663 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 909954000664 active site 909954000665 substrate binding site [chemical binding]; other site 909954000666 CoA binding site [chemical binding]; other site 909954000667 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 909954000668 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 909954000669 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 909954000670 active site 909954000671 Transcriptional regulators [Transcription]; Region: PurR; COG1609 909954000672 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 909954000673 DNA binding site [nucleotide binding] 909954000674 domain linker motif; other site 909954000675 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 909954000676 ligand binding site [chemical binding]; other site 909954000677 dimerization interface [polypeptide binding]; other site 909954000678 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 909954000679 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 909954000680 Ca binding site [ion binding]; other site 909954000681 active site 909954000682 catalytic site [active] 909954000683 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 909954000684 homodimer interface [polypeptide binding]; other site 909954000685 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 909954000686 active site 909954000687 homodimer interface [polypeptide binding]; other site 909954000688 catalytic site [active] 909954000689 maltose phosphorylase; Provisional; Region: PRK13807 909954000690 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 909954000691 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 909954000692 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 909954000693 beta-phosphoglucomutase; Region: bPGM; TIGR01990 909954000694 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 909954000695 motif II; other site 909954000696 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 909954000697 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 909954000698 Walker A/P-loop; other site 909954000699 ATP binding site [chemical binding]; other site 909954000700 Q-loop/lid; other site 909954000701 ABC transporter signature motif; other site 909954000702 Walker B; other site 909954000703 D-loop; other site 909954000704 H-loop/switch region; other site 909954000705 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 909954000706 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 909954000707 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 909954000708 dimer interface [polypeptide binding]; other site 909954000709 conserved gate region; other site 909954000710 putative PBP binding loops; other site 909954000711 ABC-ATPase subunit interface; other site 909954000712 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 909954000713 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 909954000714 dimer interface [polypeptide binding]; other site 909954000715 conserved gate region; other site 909954000716 putative PBP binding loops; other site 909954000717 ABC-ATPase subunit interface; other site 909954000718 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 909954000719 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 909954000720 Ca binding site [ion binding]; other site 909954000721 active site 909954000722 catalytic site [active] 909954000723 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 909954000724 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 909954000725 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 909954000726 Zn2+ binding site [ion binding]; other site 909954000727 Mg2+ binding site [ion binding]; other site 909954000728 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 909954000729 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 909954000730 CTP synthetase; Validated; Region: pyrG; PRK05380 909954000731 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 909954000732 Catalytic site [active] 909954000733 active site 909954000734 UTP binding site [chemical binding]; other site 909954000735 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 909954000736 active site 909954000737 putative oxyanion hole; other site 909954000738 catalytic triad [active] 909954000739 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 909954000740 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 909954000741 hinge; other site 909954000742 active site 909954000743 xanthine permease; Region: pbuX; TIGR03173 909954000744 xanthine phosphoribosyltransferase; Validated; Region: PRK09219 909954000745 GMP synthase; Reviewed; Region: guaA; PRK00074 909954000746 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 909954000747 AMP/PPi binding site [chemical binding]; other site 909954000748 candidate oxyanion hole; other site 909954000749 catalytic triad [active] 909954000750 potential glutamine specificity residues [chemical binding]; other site 909954000751 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 909954000752 ATP Binding subdomain [chemical binding]; other site 909954000753 Ligand Binding sites [chemical binding]; other site 909954000754 Dimerization subdomain; other site 909954000755 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 909954000756 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 909954000757 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 909954000758 substrate binding site [chemical binding]; other site 909954000759 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 909954000760 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 909954000761 non-specific DNA binding site [nucleotide binding]; other site 909954000762 salt bridge; other site 909954000763 sequence-specific DNA binding site [nucleotide binding]; other site 909954000764 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 909954000765 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 909954000766 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 909954000767 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 909954000768 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 909954000769 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 909954000770 sequence-specific DNA binding site [nucleotide binding]; other site 909954000771 salt bridge; other site 909954000772 Tetratricopeptide repeat; Region: TPR_12; pfam13424 909954000773 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 909954000774 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 909954000775 NAD(P) binding site [chemical binding]; other site 909954000776 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 909954000777 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954000778 Walker A/P-loop; other site 909954000779 ATP binding site [chemical binding]; other site 909954000780 Q-loop/lid; other site 909954000781 ABC transporter signature motif; other site 909954000782 Walker B; other site 909954000783 D-loop; other site 909954000784 H-loop/switch region; other site 909954000785 LytTr DNA-binding domain; Region: LytTR; smart00850 909954000786 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 909954000787 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 909954000788 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 909954000789 Coenzyme A binding pocket [chemical binding]; other site 909954000790 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 909954000791 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 909954000792 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 909954000793 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 909954000794 Integrase core domain; Region: rve; pfam00665 909954000795 Integrase core domain; Region: rve_2; pfam13333 909954000796 potential frameshift: common BLAST hit: gi|268319461|ref|YP_003293117.1| OrfA for insertion sequence element IS1223D 909954000797 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 909954000798 Transposase; Region: HTH_Tnp_1; cl17663 909954000799 Helix-turn-helix domain; Region: HTH_28; pfam13518 909954000800 formyl-coenzyme A transferase; Provisional; Region: PRK05398 909954000801 CoA-transferase family III; Region: CoA_transf_3; pfam02515 909954000802 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 909954000803 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 909954000804 PYR/PP interface [polypeptide binding]; other site 909954000805 dimer interface [polypeptide binding]; other site 909954000806 TPP binding site [chemical binding]; other site 909954000807 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 909954000808 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 909954000809 TPP-binding site; other site 909954000810 dimer interface [polypeptide binding]; other site 909954000811 Membrane transport protein; Region: Mem_trans; cl09117 909954000812 Membrane transport protein; Region: Mem_trans; cl09117 909954000813 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 909954000814 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 909954000815 Peptidase family C69; Region: Peptidase_C69; pfam03577 909954000816 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 909954000817 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 909954000818 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 909954000819 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 909954000820 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 909954000821 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 909954000822 HPr interaction site; other site 909954000823 glycerol kinase (GK) interaction site [polypeptide binding]; other site 909954000824 active site 909954000825 phosphorylation site [posttranslational modification] 909954000826 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 909954000827 Melibiase; Region: Melibiase; pfam02065 909954000828 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 909954000829 Alpha amylase catalytic domain found in sucrose phosphorylase (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase; cd11355 909954000830 active site 909954000831 homodimer interface [polypeptide binding]; other site 909954000832 catalytic site [active] 909954000833 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 909954000834 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 909954000835 dimer interface [polypeptide binding]; other site 909954000836 active site 909954000837 glycine-pyridoxal phosphate binding site [chemical binding]; other site 909954000838 folate binding site [chemical binding]; other site 909954000839 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 909954000840 zinc binding site [ion binding]; other site 909954000841 putative ligand binding site [chemical binding]; other site 909954000842 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 909954000843 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 909954000844 TM-ABC transporter signature motif; other site 909954000845 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 909954000846 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954000847 Walker A/P-loop; other site 909954000848 ATP binding site [chemical binding]; other site 909954000849 Q-loop/lid; other site 909954000850 ABC transporter signature motif; other site 909954000851 Walker B; other site 909954000852 D-loop; other site 909954000853 H-loop/switch region; other site 909954000854 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 909954000855 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 909954000856 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 909954000857 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 909954000858 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 909954000859 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 909954000860 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 909954000861 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 909954000862 ATP binding site [chemical binding]; other site 909954000863 Mg++ binding site [ion binding]; other site 909954000864 motif III; other site 909954000865 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 909954000866 nucleotide binding region [chemical binding]; other site 909954000867 ATP-binding site [chemical binding]; other site 909954000868 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 909954000869 alanine racemase; Reviewed; Region: alr; PRK00053 909954000870 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 909954000871 active site 909954000872 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 909954000873 dimer interface [polypeptide binding]; other site 909954000874 substrate binding site [chemical binding]; other site 909954000875 catalytic residues [active] 909954000876 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 909954000877 FOG: CBS domain [General function prediction only]; Region: COG0517 909954000878 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 909954000879 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 909954000880 tetramer (dimer of dimers) interface [polypeptide binding]; other site 909954000881 NAD binding site [chemical binding]; other site 909954000882 dimer interface [polypeptide binding]; other site 909954000883 substrate binding site [chemical binding]; other site 909954000884 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 909954000885 putative active site [active] 909954000886 catalytic residue [active] 909954000887 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 909954000888 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 909954000889 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 909954000890 ATP binding site [chemical binding]; other site 909954000891 putative Mg++ binding site [ion binding]; other site 909954000892 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 909954000893 nucleotide binding region [chemical binding]; other site 909954000894 ATP-binding site [chemical binding]; other site 909954000895 TRCF domain; Region: TRCF; pfam03461 909954000896 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 909954000897 RNA binding surface [nucleotide binding]; other site 909954000898 Septum formation initiator; Region: DivIC; pfam04977 909954000899 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 909954000900 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 909954000901 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 909954000902 RNA binding site [nucleotide binding]; other site 909954000903 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 909954000904 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 909954000905 Ligand Binding Site [chemical binding]; other site 909954000906 FtsH Extracellular; Region: FtsH_ext; pfam06480 909954000907 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 909954000908 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 909954000909 Walker A motif; other site 909954000910 ATP binding site [chemical binding]; other site 909954000911 Walker B motif; other site 909954000912 arginine finger; other site 909954000913 Peptidase family M41; Region: Peptidase_M41; pfam01434 909954000914 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 909954000915 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 909954000916 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 909954000917 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 909954000918 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 909954000919 dimerization interface [polypeptide binding]; other site 909954000920 domain crossover interface; other site 909954000921 redox-dependent activation switch; other site 909954000922 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 909954000923 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 909954000924 FMN binding site [chemical binding]; other site 909954000925 active site 909954000926 catalytic residues [active] 909954000927 substrate binding site [chemical binding]; other site 909954000928 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 909954000929 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 909954000930 dimer interface [polypeptide binding]; other site 909954000931 putative anticodon binding site; other site 909954000932 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 909954000933 motif 1; other site 909954000934 active site 909954000935 motif 2; other site 909954000936 motif 3; other site 909954000937 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 909954000938 Clp amino terminal domain; Region: Clp_N; pfam02861 909954000939 Clp amino terminal domain; Region: Clp_N; pfam02861 909954000940 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 909954000941 Walker A motif; other site 909954000942 ATP binding site [chemical binding]; other site 909954000943 Walker B motif; other site 909954000944 arginine finger; other site 909954000945 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 909954000946 Walker A motif; other site 909954000947 ATP binding site [chemical binding]; other site 909954000948 Walker B motif; other site 909954000949 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 909954000950 DNA-directed RNA polymerase, beta subunit; Region: rpoB; TIGR02013 909954000951 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 909954000952 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 909954000953 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 909954000954 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 909954000955 RPB1 interaction site [polypeptide binding]; other site 909954000956 RPB10 interaction site [polypeptide binding]; other site 909954000957 RPB11 interaction site [polypeptide binding]; other site 909954000958 RPB3 interaction site [polypeptide binding]; other site 909954000959 RPB12 interaction site [polypeptide binding]; other site 909954000960 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 909954000961 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 909954000962 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 909954000963 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 909954000964 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 909954000965 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 909954000966 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 909954000967 DNA binding site [nucleotide binding] 909954000968 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 909954000969 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 909954000970 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 909954000971 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 909954000972 S17 interaction site [polypeptide binding]; other site 909954000973 S8 interaction site; other site 909954000974 16S rRNA interaction site [nucleotide binding]; other site 909954000975 streptomycin interaction site [chemical binding]; other site 909954000976 23S rRNA interaction site [nucleotide binding]; other site 909954000977 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 909954000978 30S ribosomal protein S7; Validated; Region: PRK05302 909954000979 elongation factor G; Reviewed; Region: PRK12739 909954000980 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 909954000981 G1 box; other site 909954000982 putative GEF interaction site [polypeptide binding]; other site 909954000983 GTP/Mg2+ binding site [chemical binding]; other site 909954000984 Switch I region; other site 909954000985 G2 box; other site 909954000986 G3 box; other site 909954000987 Switch II region; other site 909954000988 G4 box; other site 909954000989 G5 box; other site 909954000990 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 909954000991 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 909954000992 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 909954000993 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 909954000994 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 909954000995 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 909954000996 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 909954000997 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 909954000998 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 909954000999 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 909954001000 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 909954001001 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 909954001002 putative translocon binding site; other site 909954001003 protein-rRNA interface [nucleotide binding]; other site 909954001004 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 909954001005 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 909954001006 G-X-X-G motif; other site 909954001007 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 909954001008 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 909954001009 23S rRNA interface [nucleotide binding]; other site 909954001010 5S rRNA interface [nucleotide binding]; other site 909954001011 putative antibiotic binding site [chemical binding]; other site 909954001012 L25 interface [polypeptide binding]; other site 909954001013 L27 interface [polypeptide binding]; other site 909954001014 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 909954001015 23S rRNA interface [nucleotide binding]; other site 909954001016 putative translocon interaction site; other site 909954001017 signal recognition particle (SRP54) interaction site; other site 909954001018 L23 interface [polypeptide binding]; other site 909954001019 trigger factor interaction site; other site 909954001020 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 909954001021 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 909954001022 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 909954001023 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 909954001024 RNA binding site [nucleotide binding]; other site 909954001025 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 909954001026 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 909954001027 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 909954001028 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 909954001029 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 909954001030 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 909954001031 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 909954001032 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 909954001033 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 909954001034 23S rRNA interface [nucleotide binding]; other site 909954001035 L21e interface [polypeptide binding]; other site 909954001036 5S rRNA interface [nucleotide binding]; other site 909954001037 L27 interface [polypeptide binding]; other site 909954001038 L5 interface [polypeptide binding]; other site 909954001039 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 909954001040 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 909954001041 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 909954001042 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 909954001043 23S rRNA binding site [nucleotide binding]; other site 909954001044 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 909954001045 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 909954001046 SecY translocase; Region: SecY; pfam00344 909954001047 adenylate kinase; Reviewed; Region: adk; PRK00279 909954001048 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 909954001049 AMP-binding site [chemical binding]; other site 909954001050 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 909954001051 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 909954001052 rRNA binding site [nucleotide binding]; other site 909954001053 predicted 30S ribosome binding site; other site 909954001054 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 909954001055 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 909954001056 30S ribosomal protein S13; Region: bact_S13; TIGR03631 909954001057 30S ribosomal protein S11; Validated; Region: PRK05309 909954001058 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 909954001059 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 909954001060 alphaNTD homodimer interface [polypeptide binding]; other site 909954001061 alphaNTD - beta interaction site [polypeptide binding]; other site 909954001062 alphaNTD - beta' interaction site [polypeptide binding]; other site 909954001063 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 909954001064 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 909954001065 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13640 909954001066 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 909954001067 Walker A/P-loop; other site 909954001068 ATP binding site [chemical binding]; other site 909954001069 Q-loop/lid; other site 909954001070 ABC transporter signature motif; other site 909954001071 Walker B; other site 909954001072 D-loop; other site 909954001073 H-loop/switch region; other site 909954001074 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13641 909954001075 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 909954001076 Walker A/P-loop; other site 909954001077 ATP binding site [chemical binding]; other site 909954001078 Q-loop/lid; other site 909954001079 ABC transporter signature motif; other site 909954001080 Walker B; other site 909954001081 D-loop; other site 909954001082 H-loop/switch region; other site 909954001083 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 909954001084 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 909954001085 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 909954001086 dimerization interface 3.5A [polypeptide binding]; other site 909954001087 active site 909954001088 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 909954001089 23S rRNA interface [nucleotide binding]; other site 909954001090 L3 interface [polypeptide binding]; other site 909954001091 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 909954001092 Predicted helicase [General function prediction only]; Region: COG4889 909954001093 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 909954001094 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 909954001095 ATP binding site [chemical binding]; other site 909954001096 putative Mg++ binding site [ion binding]; other site 909954001097 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 909954001098 nucleotide binding region [chemical binding]; other site 909954001099 ATP-binding site [chemical binding]; other site 909954001100 NAD-dependent deacetylase; Provisional; Region: PRK00481 909954001101 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 909954001102 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 909954001103 NADH(P)-binding; Region: NAD_binding_10; pfam13460 909954001104 NAD binding site [chemical binding]; other site 909954001105 substrate binding site [chemical binding]; other site 909954001106 putative active site [active] 909954001107 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 909954001108 Protein of unknown function (DUF3533); Region: DUF3533; pfam12051 909954001109 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 909954001110 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 909954001111 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 909954001112 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 909954001113 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 909954001114 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 909954001115 NAD(P) binding site [chemical binding]; other site 909954001116 active site 909954001117 DJ-1 family protein; Region: not_thiJ; TIGR01383 909954001118 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 909954001119 conserved cys residue [active] 909954001120 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 909954001121 catalytic core [active] 909954001122 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 909954001123 dimerization interface [polypeptide binding]; other site 909954001124 putative DNA binding site [nucleotide binding]; other site 909954001125 putative Zn2+ binding site [ion binding]; other site 909954001126 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 909954001127 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 909954001128 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 909954001129 Probable transposase; Region: OrfB_IS605; pfam01385 909954001130 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 909954001131 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 909954001132 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 909954001133 AAA domain; Region: AAA_33; pfam13671 909954001134 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 909954001135 MucBP domain; Region: MucBP; pfam06458 909954001136 MucBP domain; Region: MucBP; pfam06458 909954001137 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 909954001138 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 909954001139 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 909954001140 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 909954001141 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 909954001142 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 909954001143 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 909954001144 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 909954001145 accessory Sec system translocase SecY2; Region: acc_sec_Y2; TIGR02920 909954001146 SecY translocase; Region: SecY; pfam00344 909954001147 accessory Sec system protein Asp1; Region: acc_sec_asp1; TIGR03713 909954001148 accessory Sec system protein Asp2; Region: acc_sec_asp2; TIGR03712 909954001149 accessory Sec system protein Asp3; Region: acc_sec_asp3; TIGR03711 909954001150 accessory Sec system translocase SecA2; Region: secA2; TIGR03714 909954001151 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 909954001152 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 909954001153 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 909954001154 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 909954001155 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 909954001156 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 909954001157 active site 909954001158 potential frameshift: common BLAST hit: gi|268319461|ref|YP_003293117.1| OrfA for insertion sequence element IS1223D 909954001159 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 909954001160 Transposase; Region: HTH_Tnp_1; cl17663 909954001161 Helix-turn-helix domain; Region: HTH_28; pfam13518 909954001162 Integrase core domain; Region: rve; pfam00665 909954001163 Integrase core domain; Region: rve_2; pfam13333 909954001164 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 909954001165 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 909954001166 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 909954001167 trimer interface [polypeptide binding]; other site 909954001168 active site 909954001169 G bulge; other site 909954001170 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 909954001171 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 909954001172 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 909954001173 trimer interface [polypeptide binding]; other site 909954001174 active site 909954001175 DNA repair protein RadA; Provisional; Region: PRK11823 909954001176 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 909954001177 Walker A motif/ATP binding site; other site 909954001178 ATP binding site [chemical binding]; other site 909954001179 Walker B motif; other site 909954001180 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 909954001181 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 909954001182 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 909954001183 active site 909954001184 HIGH motif; other site 909954001185 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 909954001186 active site 909954001187 KMSKS motif; other site 909954001188 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 909954001189 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 909954001190 active site 909954001191 HIGH motif; other site 909954001192 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 909954001193 KMSKS motif; other site 909954001194 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 909954001195 tRNA binding surface [nucleotide binding]; other site 909954001196 anticodon binding site; other site 909954001197 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 909954001198 active site 909954001199 metal binding site [ion binding]; metal-binding site 909954001200 dimerization interface [polypeptide binding]; other site 909954001201 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 909954001202 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 909954001203 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 909954001204 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 909954001205 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 909954001206 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 909954001207 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 909954001208 N- and C-terminal domain interface [polypeptide binding]; other site 909954001209 active site 909954001210 catalytic site [active] 909954001211 metal binding site [ion binding]; metal-binding site 909954001212 carbohydrate binding site [chemical binding]; other site 909954001213 ATP binding site [chemical binding]; other site 909954001214 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 909954001215 Major Facilitator Superfamily; Region: MFS_1; pfam07690 909954001216 putative substrate translocation pore; other site 909954001217 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 909954001218 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 909954001219 substrate binding pocket [chemical binding]; other site 909954001220 chain length determination region; other site 909954001221 substrate-Mg2+ binding site; other site 909954001222 catalytic residues [active] 909954001223 aspartate-rich region 1; other site 909954001224 active site lid residues [active] 909954001225 aspartate-rich region 2; other site 909954001226 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 909954001227 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 909954001228 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 909954001229 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 909954001230 putative homodimer interface [polypeptide binding]; other site 909954001231 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 909954001232 heterodimer interface [polypeptide binding]; other site 909954001233 homodimer interface [polypeptide binding]; other site 909954001234 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 909954001235 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 909954001236 23S rRNA interface [nucleotide binding]; other site 909954001237 L7/L12 interface [polypeptide binding]; other site 909954001238 putative thiostrepton binding site; other site 909954001239 L25 interface [polypeptide binding]; other site 909954001240 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 909954001241 mRNA/rRNA interface [nucleotide binding]; other site 909954001242 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 909954001243 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 909954001244 dimer interface [polypeptide binding]; other site 909954001245 conserved gate region; other site 909954001246 putative PBP binding loops; other site 909954001247 ABC-ATPase subunit interface; other site 909954001248 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 909954001249 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954001250 Walker A/P-loop; other site 909954001251 ATP binding site [chemical binding]; other site 909954001252 Q-loop/lid; other site 909954001253 ABC transporter signature motif; other site 909954001254 Walker B; other site 909954001255 D-loop; other site 909954001256 H-loop/switch region; other site 909954001257 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 909954001258 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 909954001259 substrate binding pocket [chemical binding]; other site 909954001260 membrane-bound complex binding site; other site 909954001261 hinge residues; other site 909954001262 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 909954001263 23S rRNA interface [nucleotide binding]; other site 909954001264 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 909954001265 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 909954001266 core dimer interface [polypeptide binding]; other site 909954001267 peripheral dimer interface [polypeptide binding]; other site 909954001268 L10 interface [polypeptide binding]; other site 909954001269 L11 interface [polypeptide binding]; other site 909954001270 putative EF-Tu interaction site [polypeptide binding]; other site 909954001271 putative EF-G interaction site [polypeptide binding]; other site 909954001272 Ion transport protein; Region: Ion_trans; pfam00520 909954001273 Ion channel; Region: Ion_trans_2; pfam07885 909954001274 Centromere protein H (CENP-H); Region: CENP-H; pfam05837 909954001275 Methyltransferase domain; Region: Methyltransf_31; pfam13847 909954001276 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 909954001277 S-adenosylmethionine binding site [chemical binding]; other site 909954001278 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 909954001279 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 909954001280 nucleoside/Zn binding site; other site 909954001281 dimer interface [polypeptide binding]; other site 909954001282 catalytic motif [active] 909954001283 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 909954001284 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 909954001285 Walker A motif; other site 909954001286 ATP binding site [chemical binding]; other site 909954001287 DNA polymerase III subunit delta'; Validated; Region: PRK08485 909954001288 Walker B motif; other site 909954001289 hypothetical protein; Validated; Region: PRK00153 909954001290 recombination protein RecR; Reviewed; Region: recR; PRK00076 909954001291 RecR protein; Region: RecR; pfam02132 909954001292 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 909954001293 putative active site [active] 909954001294 putative metal-binding site [ion binding]; other site 909954001295 tetramer interface [polypeptide binding]; other site 909954001296 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 909954001297 thymidylate kinase; Validated; Region: tmk; PRK00698 909954001298 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 909954001299 TMP-binding site; other site 909954001300 ATP-binding site [chemical binding]; other site 909954001301 Protein of unknown function (DUF970); Region: DUF970; cl17525 909954001302 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 909954001303 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 909954001304 Predicted methyltransferases [General function prediction only]; Region: COG0313 909954001305 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 909954001306 putative SAM binding site [chemical binding]; other site 909954001307 putative homodimer interface [polypeptide binding]; other site 909954001308 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 909954001309 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 909954001310 active site 909954001311 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 909954001312 active site 2 [active] 909954001313 active site 1 [active] 909954001314 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 909954001315 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 909954001316 Glycoprotease family; Region: Peptidase_M22; pfam00814 909954001317 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 909954001318 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 909954001319 Coenzyme A binding pocket [chemical binding]; other site 909954001320 UGMP family protein; Validated; Region: PRK09604 909954001321 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 909954001322 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 909954001323 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 909954001324 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 909954001325 Cl- selectivity filter; other site 909954001326 Cl- binding residues [ion binding]; other site 909954001327 pore gating glutamate residue; other site 909954001328 dimer interface [polypeptide binding]; other site 909954001329 H+/Cl- coupling transport residue; other site 909954001330 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 909954001331 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 909954001332 active site 909954001333 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 909954001334 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 909954001335 GDP-binding site [chemical binding]; other site 909954001336 ACT binding site; other site 909954001337 IMP binding site; other site 909954001338 adenylosuccinate lyase; Provisional; Region: PRK07492 909954001339 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 909954001340 tetramer interface [polypeptide binding]; other site 909954001341 active site 909954001342 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 909954001343 active site 909954001344 Ap4A binding cleft/pocket [chemical binding]; other site 909954001345 P4 phosphate binding site; other site 909954001346 nudix motif; other site 909954001347 putative P2/P3 phosphate binding site [ion binding]; other site 909954001348 RelB antitoxin; Region: RelB; cl01171 909954001349 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 909954001350 CoA-transferase family III; Region: CoA_transf_3; pfam02515 909954001351 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 909954001352 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 909954001353 non-specific DNA binding site [nucleotide binding]; other site 909954001354 salt bridge; other site 909954001355 sequence-specific DNA binding site [nucleotide binding]; other site 909954001356 H+ Antiporter protein; Region: 2A0121; TIGR00900 909954001357 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 909954001358 putative substrate translocation pore; other site 909954001359 Transposase; Region: DEDD_Tnp_IS110; pfam01548 909954001360 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 909954001361 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 909954001362 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 909954001363 non-specific DNA binding site [nucleotide binding]; other site 909954001364 salt bridge; other site 909954001365 sequence-specific DNA binding site [nucleotide binding]; other site 909954001366 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 909954001367 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 909954001368 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 909954001369 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954001370 Walker A/P-loop; other site 909954001371 ATP binding site [chemical binding]; other site 909954001372 Q-loop/lid; other site 909954001373 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 909954001374 ABC transporter; Region: ABC_tran_2; pfam12848 909954001375 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 909954001376 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 909954001377 Probable transposase; Region: OrfB_IS605; pfam01385 909954001378 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 909954001379 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 909954001380 Sec23/Sec24 zinc finger; Region: zf-Sec23_Sec24; pfam04810 909954001381 Transposase IS200 like; Region: Y1_Tnp; pfam01797 909954001382 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 909954001383 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 909954001384 CoA binding domain; Region: CoA_binding; pfam02629 909954001385 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 909954001386 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 909954001387 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 909954001388 DNA-binding site [nucleotide binding]; DNA binding site 909954001389 UTRA domain; Region: UTRA; pfam07702 909954001390 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 909954001391 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 909954001392 Domain of unknown function (DUF303); Region: DUF303; pfam03629 909954001393 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 909954001394 active site 909954001395 P-loop; other site 909954001396 phosphorylation site [posttranslational modification] 909954001397 LytTr DNA-binding domain; Region: LytTR; smart00850 909954001398 Protein of unknown function (DUF2663); Region: DUF2663; pfam10864 909954001399 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 909954001400 oligomerisation interface [polypeptide binding]; other site 909954001401 mobile loop; other site 909954001402 roof hairpin; other site 909954001403 chaperonin GroL; Region: GroEL; TIGR02348 909954001404 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 909954001405 ring oligomerisation interface [polypeptide binding]; other site 909954001406 ATP/Mg binding site [chemical binding]; other site 909954001407 stacking interactions; other site 909954001408 hinge regions; other site 909954001409 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 909954001410 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 909954001411 non-specific DNA binding site [nucleotide binding]; other site 909954001412 salt bridge; other site 909954001413 sequence-specific DNA binding site [nucleotide binding]; other site 909954001414 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 909954001415 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 909954001416 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 909954001417 Walker A/P-loop; other site 909954001418 ATP binding site [chemical binding]; other site 909954001419 Q-loop/lid; other site 909954001420 ABC transporter signature motif; other site 909954001421 Walker B; other site 909954001422 D-loop; other site 909954001423 H-loop/switch region; other site 909954001424 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 909954001425 MutS domain I; Region: MutS_I; pfam01624 909954001426 MutS domain II; Region: MutS_II; pfam05188 909954001427 MutS domain III; Region: MutS_III; pfam05192 909954001428 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 909954001429 Walker A/P-loop; other site 909954001430 ATP binding site [chemical binding]; other site 909954001431 Q-loop/lid; other site 909954001432 ABC transporter signature motif; other site 909954001433 Walker B; other site 909954001434 D-loop; other site 909954001435 H-loop/switch region; other site 909954001436 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 909954001437 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 909954001438 ATP binding site [chemical binding]; other site 909954001439 Mg2+ binding site [ion binding]; other site 909954001440 G-X-G motif; other site 909954001441 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 909954001442 ATP binding site [chemical binding]; other site 909954001443 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 909954001444 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 909954001445 RuvA N terminal domain; Region: RuvA_N; pfam01330 909954001446 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 909954001447 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 909954001448 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 909954001449 Walker A motif; other site 909954001450 ATP binding site [chemical binding]; other site 909954001451 Walker B motif; other site 909954001452 arginine finger; other site 909954001453 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 909954001454 Preprotein translocase subunit; Region: YajC; pfam02699 909954001455 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 909954001456 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 909954001457 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 909954001458 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 909954001459 active site 909954001460 DNA polymerase IV; Validated; Region: PRK02406 909954001461 DNA binding site [nucleotide binding] 909954001462 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 909954001463 DHH family; Region: DHH; pfam01368 909954001464 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 909954001465 DEAD-like helicases superfamily; Region: DEXDc; smart00487 909954001466 ATP binding site [chemical binding]; other site 909954001467 putative Mg++ binding site [ion binding]; other site 909954001468 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 909954001469 nucleotide binding region [chemical binding]; other site 909954001470 ATP-binding site [chemical binding]; other site 909954001471 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 909954001472 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 909954001473 motif 1; other site 909954001474 active site 909954001475 motif 2; other site 909954001476 motif 3; other site 909954001477 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 909954001478 DHHA1 domain; Region: DHHA1; pfam02272 909954001479 hypothetical protein; Provisional; Region: PRK05473 909954001480 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 909954001481 hypothetical protein; Provisional; Region: PRK13678 909954001482 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 909954001483 Colicin V production protein; Region: Colicin_V; pfam02674 909954001484 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 909954001485 MutS domain III; Region: MutS_III; pfam05192 909954001486 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954001487 Walker A/P-loop; other site 909954001488 ATP binding site [chemical binding]; other site 909954001489 Q-loop/lid; other site 909954001490 ABC transporter signature motif; other site 909954001491 Walker B; other site 909954001492 D-loop; other site 909954001493 H-loop/switch region; other site 909954001494 Smr domain; Region: Smr; pfam01713 909954001495 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 909954001496 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 909954001497 catalytic residues [active] 909954001498 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 909954001499 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 909954001500 putative active site [active] 909954001501 putative NTP binding site [chemical binding]; other site 909954001502 putative nucleic acid binding site [nucleotide binding]; other site 909954001503 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 909954001504 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 909954001505 glutamate racemase; Provisional; Region: PRK00865 909954001506 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 909954001507 active site 909954001508 dimerization interface [polypeptide binding]; other site 909954001509 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 909954001510 propionate/acetate kinase; Provisional; Region: PRK12379 909954001511 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 909954001512 Mechanosensitive ion channel; Region: MS_channel; pfam00924 909954001513 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 909954001514 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 909954001515 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 909954001516 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 909954001517 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 909954001518 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 909954001519 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 909954001520 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 909954001521 MucBP domain; Region: MucBP; pfam06458 909954001522 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 909954001523 potential frameshift: common BLAST hit: gi|42519473|ref|NP_965403.1| transposase 909954001524 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 909954001525 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 909954001526 Transposase; Region: DDE_Tnp_ISL3; pfam01610 909954001527 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 909954001528 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 909954001529 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 909954001530 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 909954001531 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 909954001532 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 909954001533 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 909954001534 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 909954001535 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 909954001536 active site 909954001537 catabolite control protein A; Region: ccpA; TIGR01481 909954001538 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 909954001539 DNA binding site [nucleotide binding] 909954001540 domain linker motif; other site 909954001541 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 909954001542 dimerization interface [polypeptide binding]; other site 909954001543 effector binding site; other site 909954001544 Transglycosylase; Region: Transgly; pfam00912 909954001545 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 909954001546 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 909954001547 dipeptidase PepV; Reviewed; Region: PRK07318 909954001548 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 909954001549 active site 909954001550 metal binding site [ion binding]; metal-binding site 909954001551 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 909954001552 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 909954001553 active site 909954001554 catalytic site [active] 909954001555 metal binding site [ion binding]; metal-binding site 909954001556 Major Outer Sheath Protein C-terminal region; Region: MOSP_C; pfam02722 909954001557 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 909954001558 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 909954001559 active site 909954001560 metal binding site [ion binding]; metal-binding site 909954001561 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 909954001562 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 909954001563 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 909954001564 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 909954001565 active site 909954001566 motif I; other site 909954001567 motif II; other site 909954001568 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 909954001569 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 909954001570 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 909954001571 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 909954001572 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 909954001573 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 909954001574 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 909954001575 general stress protein 13; Validated; Region: PRK08059 909954001576 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 909954001577 RNA binding site [nucleotide binding]; other site 909954001578 S-adenosylmethionine synthetase; Validated; Region: PRK05250 909954001579 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 909954001580 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 909954001581 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 909954001582 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 909954001583 Major Facilitator Superfamily; Region: MFS_1; pfam07690 909954001584 putative substrate translocation pore; other site 909954001585 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 909954001586 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 909954001587 Transposase; Region: HTH_Tnp_1; cl17663 909954001588 Helix-turn-helix domain; Region: HTH_28; pfam13518 909954001589 Integrase core domain; Region: rve; pfam00665 909954001590 Integrase core domain; Region: rve_2; pfam13333 909954001591 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 909954001592 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 909954001593 active site 909954001594 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 909954001595 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 909954001596 HIGH motif; other site 909954001597 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 909954001598 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 909954001599 active site 909954001600 KMSKS motif; other site 909954001601 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 909954001602 tRNA binding surface [nucleotide binding]; other site 909954001603 stage V sporulation protein B; Region: spore_V_B; TIGR02900 909954001604 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 909954001605 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 909954001606 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 909954001607 putative substrate binding site [chemical binding]; other site 909954001608 putative ATP binding site [chemical binding]; other site 909954001609 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 909954001610 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 909954001611 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 909954001612 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 909954001613 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 909954001614 active site 909954001615 HIGH motif; other site 909954001616 KMSK motif region; other site 909954001617 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 909954001618 tRNA binding surface [nucleotide binding]; other site 909954001619 anticodon binding site; other site 909954001620 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 909954001621 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 909954001622 intersubunit interface [polypeptide binding]; other site 909954001623 active site 909954001624 zinc binding site [ion binding]; other site 909954001625 Na+ binding site [ion binding]; other site 909954001626 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 909954001627 active site 909954001628 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 909954001629 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 909954001630 catalytic triad [active] 909954001631 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 909954001632 NADH(P)-binding; Region: NAD_binding_10; pfam13460 909954001633 NAD(P) binding site [chemical binding]; other site 909954001634 putative active site [active] 909954001635 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 909954001636 GAF domain; Region: GAF_2; pfam13185 909954001637 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 909954001638 Predicted permeases [General function prediction only]; Region: COG0679 909954001639 CAAX protease self-immunity; Region: Abi; pfam02517 909954001640 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 909954001641 amphipathic channel; other site 909954001642 Asn-Pro-Ala signature motifs; other site 909954001643 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 909954001644 Major Facilitator Superfamily; Region: MFS_1; pfam07690 909954001645 putative substrate translocation pore; other site 909954001646 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 909954001647 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 909954001648 putative substrate translocation pore; other site 909954001649 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 909954001650 Coenzyme A binding pocket [chemical binding]; other site 909954001651 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 909954001652 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 909954001653 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 909954001654 active site 909954001655 motif I; other site 909954001656 motif II; other site 909954001657 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 909954001658 uracil transporter; Provisional; Region: PRK10720 909954001659 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 909954001660 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 909954001661 glutaminase A; Region: Gln_ase; TIGR03814 909954001662 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 909954001663 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 909954001664 active site 909954001665 Phospholipase B; Region: Phospholip_B; pfam04916 909954001666 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 909954001667 trimer interface [polypeptide binding]; other site 909954001668 active site 909954001669 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 909954001670 Peptidase family C69; Region: Peptidase_C69; pfam03577 909954001671 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 909954001672 trimer interface [polypeptide binding]; other site 909954001673 active site 909954001674 G bulge; other site 909954001675 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 909954001676 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 909954001677 drug efflux system protein MdtG; Provisional; Region: PRK09874 909954001678 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 909954001679 putative substrate translocation pore; other site 909954001680 MarR family; Region: MarR_2; pfam12802 909954001681 Transposase; Region: DEDD_Tnp_IS110; pfam01548 909954001682 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 909954001683 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 909954001684 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 909954001685 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 909954001686 oligomer interface [polypeptide binding]; other site 909954001687 active site 909954001688 metal binding site [ion binding]; metal-binding site 909954001689 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 909954001690 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 909954001691 Walker A/P-loop; other site 909954001692 ATP binding site [chemical binding]; other site 909954001693 Q-loop/lid; other site 909954001694 ABC transporter signature motif; other site 909954001695 Walker B; other site 909954001696 D-loop; other site 909954001697 H-loop/switch region; other site 909954001698 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 909954001699 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 909954001700 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 909954001701 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 909954001702 Spore germination protein; Region: Spore_permease; cl17796 909954001703 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 909954001704 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 909954001705 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 909954001706 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 909954001707 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 909954001708 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 909954001709 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 909954001710 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 909954001711 putative substrate translocation pore; other site 909954001712 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 909954001713 Peptidase family C69; Region: Peptidase_C69; pfam03577 909954001714 benzoate transport; Region: 2A0115; TIGR00895 909954001715 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 909954001716 putative substrate translocation pore; other site 909954001717 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 909954001718 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 909954001719 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909954001720 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954001721 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 909954001722 Walker A/P-loop; other site 909954001723 ATP binding site [chemical binding]; other site 909954001724 Q-loop/lid; other site 909954001725 ABC transporter signature motif; other site 909954001726 Walker B; other site 909954001727 D-loop; other site 909954001728 H-loop/switch region; other site 909954001729 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 909954001730 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909954001731 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 909954001732 Walker A/P-loop; other site 909954001733 ATP binding site [chemical binding]; other site 909954001734 Q-loop/lid; other site 909954001735 ABC transporter signature motif; other site 909954001736 Walker B; other site 909954001737 D-loop; other site 909954001738 H-loop/switch region; other site 909954001739 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 909954001740 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 909954001741 substrate binding pocket [chemical binding]; other site 909954001742 membrane-bound complex binding site; other site 909954001743 hinge residues; other site 909954001744 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 909954001745 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 909954001746 Walker A/P-loop; other site 909954001747 ATP binding site [chemical binding]; other site 909954001748 Q-loop/lid; other site 909954001749 ABC transporter signature motif; other site 909954001750 Walker B; other site 909954001751 D-loop; other site 909954001752 H-loop/switch region; other site 909954001753 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 909954001754 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 909954001755 substrate binding pocket [chemical binding]; other site 909954001756 membrane-bound complex binding site; other site 909954001757 hinge residues; other site 909954001758 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 909954001759 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 909954001760 dimer interface [polypeptide binding]; other site 909954001761 conserved gate region; other site 909954001762 putative PBP binding loops; other site 909954001763 ABC-ATPase subunit interface; other site 909954001764 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 909954001765 dimer interface [polypeptide binding]; other site 909954001766 conserved gate region; other site 909954001767 putative PBP binding loops; other site 909954001768 ABC-ATPase subunit interface; other site 909954001769 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 909954001770 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 909954001771 Ca binding site [ion binding]; other site 909954001772 active site 909954001773 catalytic site [active] 909954001774 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 909954001775 HPr interaction site; other site 909954001776 glycerol kinase (GK) interaction site [polypeptide binding]; other site 909954001777 active site 909954001778 phosphorylation site [posttranslational modification] 909954001779 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 909954001780 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 909954001781 active site turn [active] 909954001782 phosphorylation site [posttranslational modification] 909954001783 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 909954001784 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; cl01382 909954001785 Predicted transcriptional regulators [Transcription]; Region: COG1695 909954001786 Transcriptional regulator PadR-like family; Region: PadR; cl17335 909954001787 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 909954001788 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 909954001789 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 909954001790 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 909954001791 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 909954001792 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 909954001793 Sugar specificity; other site 909954001794 Pyrimidine base specificity; other site 909954001795 ATP-binding site [chemical binding]; other site 909954001796 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 909954001797 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 909954001798 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 909954001799 active site 909954001800 phosphorylation site [posttranslational modification] 909954001801 intermolecular recognition site; other site 909954001802 dimerization interface [polypeptide binding]; other site 909954001803 LytTr DNA-binding domain; Region: LytTR; pfam04397 909954001804 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 909954001805 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 909954001806 putative active site [active] 909954001807 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909954001808 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954001809 Walker A/P-loop; other site 909954001810 ATP binding site [chemical binding]; other site 909954001811 Q-loop/lid; other site 909954001812 ABC transporter signature motif; other site 909954001813 Walker B; other site 909954001814 D-loop; other site 909954001815 H-loop/switch region; other site 909954001816 Transposase; Region: DEDD_Tnp_IS110; pfam01548 909954001817 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 909954001818 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 909954001819 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 909954001820 HlyD family secretion protein; Region: HlyD_3; pfam13437 909954001821 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 909954001822 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 909954001823 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 909954001824 Helix-turn-helix domain; Region: HTH_38; pfam13936 909954001825 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 909954001826 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 909954001827 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 909954001828 active site 909954001829 phosphorylation site [posttranslational modification] 909954001830 intermolecular recognition site; other site 909954001831 dimerization interface [polypeptide binding]; other site 909954001832 LytTr DNA-binding domain; Region: LytTR; pfam04397 909954001833 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 909954001834 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 909954001835 putative active site [active] 909954001836 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909954001837 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954001838 Walker A/P-loop; other site 909954001839 ATP binding site [chemical binding]; other site 909954001840 Q-loop/lid; other site 909954001841 ABC transporter signature motif; other site 909954001842 Walker B; other site 909954001843 D-loop; other site 909954001844 H-loop/switch region; other site 909954001845 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 909954001846 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 909954001847 Enterocin A Immunity; Region: EntA_Immun; pfam08951 909954001848 Enterocin A Immunity; Region: EntA_Immun; pfam08951 909954001849 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 909954001850 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 909954001851 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 909954001852 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 909954001853 Soluble P-type ATPase [General function prediction only]; Region: COG4087 909954001854 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 909954001855 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 909954001856 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 909954001857 active site 909954001858 nucleophile elbow; other site 909954001859 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 909954001860 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 909954001861 Walker A/P-loop; other site 909954001862 ATP binding site [chemical binding]; other site 909954001863 Q-loop/lid; other site 909954001864 ABC transporter signature motif; other site 909954001865 Walker B; other site 909954001866 D-loop; other site 909954001867 H-loop/switch region; other site 909954001868 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 909954001869 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 909954001870 Coenzyme A binding pocket [chemical binding]; other site 909954001871 PBP superfamily domain; Region: PBP_like_2; cl17296 909954001872 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 909954001873 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 909954001874 dimer interface [polypeptide binding]; other site 909954001875 conserved gate region; other site 909954001876 putative PBP binding loops; other site 909954001877 ABC-ATPase subunit interface; other site 909954001878 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 909954001879 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 909954001880 dimer interface [polypeptide binding]; other site 909954001881 conserved gate region; other site 909954001882 putative PBP binding loops; other site 909954001883 ABC-ATPase subunit interface; other site 909954001884 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 909954001885 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 909954001886 Walker A/P-loop; other site 909954001887 ATP binding site [chemical binding]; other site 909954001888 Q-loop/lid; other site 909954001889 ABC transporter signature motif; other site 909954001890 Walker B; other site 909954001891 D-loop; other site 909954001892 H-loop/switch region; other site 909954001893 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14251 909954001894 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 909954001895 Walker A/P-loop; other site 909954001896 ATP binding site [chemical binding]; other site 909954001897 Q-loop/lid; other site 909954001898 ABC transporter signature motif; other site 909954001899 Walker B; other site 909954001900 D-loop; other site 909954001901 H-loop/switch region; other site 909954001902 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 909954001903 PhoU domain; Region: PhoU; pfam01895 909954001904 PhoU domain; Region: PhoU; pfam01895 909954001905 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 909954001906 Coenzyme A binding pocket [chemical binding]; other site 909954001907 Predicted membrane protein [Function unknown]; Region: COG1288 909954001908 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 909954001909 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 909954001910 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 909954001911 dimerization interface [polypeptide binding]; other site 909954001912 DPS ferroxidase diiron center [ion binding]; other site 909954001913 ion pore; other site 909954001914 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 909954001915 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 909954001916 substrate binding site [chemical binding]; other site 909954001917 dimer interface [polypeptide binding]; other site 909954001918 ATP binding site [chemical binding]; other site 909954001919 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 909954001920 tetramer (dimer of dimers) interface [polypeptide binding]; other site 909954001921 active site 909954001922 dimer interface [polypeptide binding]; other site 909954001923 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 909954001924 non-specific DNA binding site [nucleotide binding]; other site 909954001925 salt bridge; other site 909954001926 sequence-specific DNA binding site [nucleotide binding]; other site 909954001927 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 909954001928 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 909954001929 active site 909954001930 ATP binding site [chemical binding]; other site 909954001931 Lanthionine synthetase C-like protein; Region: LANC_like; pfam05147 909954001932 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 909954001933 active site 909954001934 zinc binding site [ion binding]; other site 909954001935 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909954001936 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 909954001937 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 909954001938 Walker A/P-loop; other site 909954001939 ATP binding site [chemical binding]; other site 909954001940 Q-loop/lid; other site 909954001941 ABC transporter signature motif; other site 909954001942 Walker B; other site 909954001943 D-loop; other site 909954001944 H-loop/switch region; other site 909954001945 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 909954001946 active site 909954001947 tetramer interface [polypeptide binding]; other site 909954001948 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 909954001949 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 909954001950 DNA-binding site [nucleotide binding]; DNA binding site 909954001951 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 909954001952 Enterocin A Immunity; Region: EntA_Immun; pfam08951 909954001953 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 909954001954 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 909954001955 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 909954001956 putative phosphoketolase; Provisional; Region: PRK05261 909954001957 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 909954001958 TPP-binding site; other site 909954001959 XFP C-terminal domain; Region: XFP_C; pfam09363 909954001960 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 909954001961 putative FMN binding site [chemical binding]; other site 909954001962 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 909954001963 Domain of unknown function DUF21; Region: DUF21; pfam01595 909954001964 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 909954001965 Transporter associated domain; Region: CorC_HlyC; smart01091 909954001966 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 909954001967 active site 909954001968 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 909954001969 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 909954001970 active site 909954001971 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 909954001972 DEAD-like helicases superfamily; Region: DEXDc; smart00487 909954001973 ATP binding site [chemical binding]; other site 909954001974 putative Mg++ binding site [ion binding]; other site 909954001975 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 909954001976 nucleotide binding region [chemical binding]; other site 909954001977 ATP-binding site [chemical binding]; other site 909954001978 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 909954001979 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 909954001980 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 909954001981 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 909954001982 active site 909954001983 homodimer interface [polypeptide binding]; other site 909954001984 Predicted membrane protein [Function unknown]; Region: COG2246 909954001985 GtrA-like protein; Region: GtrA; pfam04138 909954001986 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 909954001987 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 909954001988 active site 909954001989 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 909954001990 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 909954001991 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 909954001992 active site 909954001993 tetramer interface; other site 909954001994 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 909954001995 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954001996 Walker A/P-loop; other site 909954001997 ATP binding site [chemical binding]; other site 909954001998 Q-loop/lid; other site 909954001999 ABC transporter signature motif; other site 909954002000 Walker B; other site 909954002001 D-loop; other site 909954002002 H-loop/switch region; other site 909954002003 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 909954002004 conserved gate region; other site 909954002005 ABC-ATPase subunit interface; other site 909954002006 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 909954002007 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 909954002008 OsmC-like protein; Region: OsmC; pfam02566 909954002009 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 909954002010 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 909954002011 synthetase active site [active] 909954002012 NTP binding site [chemical binding]; other site 909954002013 metal binding site [ion binding]; metal-binding site 909954002014 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 909954002015 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 909954002016 active site 909954002017 phosphorylation site [posttranslational modification] 909954002018 intermolecular recognition site; other site 909954002019 dimerization interface [polypeptide binding]; other site 909954002020 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 909954002021 DNA binding site [nucleotide binding] 909954002022 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 909954002023 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 909954002024 dimer interface [polypeptide binding]; other site 909954002025 phosphorylation site [posttranslational modification] 909954002026 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 909954002027 ATP binding site [chemical binding]; other site 909954002028 Mg2+ binding site [ion binding]; other site 909954002029 G-X-G motif; other site 909954002030 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 909954002031 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; smart00940 909954002032 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 909954002033 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 909954002034 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 909954002035 Zn binding site [ion binding]; other site 909954002036 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 909954002037 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 909954002038 active site 909954002039 motif I; other site 909954002040 motif II; other site 909954002041 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 909954002042 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 909954002043 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909954002044 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954002045 Walker A/P-loop; other site 909954002046 ATP binding site [chemical binding]; other site 909954002047 Q-loop/lid; other site 909954002048 ABC transporter signature motif; other site 909954002049 Walker B; other site 909954002050 D-loop; other site 909954002051 H-loop/switch region; other site 909954002052 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 909954002053 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 909954002054 glutaminase active site [active] 909954002055 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 909954002056 dimer interface [polypeptide binding]; other site 909954002057 active site 909954002058 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 909954002059 dimer interface [polypeptide binding]; other site 909954002060 active site 909954002061 Fic/DOC family; Region: Fic; cl00960 909954002062 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 909954002063 Major Facilitator Superfamily; Region: MFS_1; pfam07690 909954002064 putative substrate translocation pore; other site 909954002065 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 909954002066 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 909954002067 DNA binding residues [nucleotide binding] 909954002068 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 909954002069 putative dimer interface [polypeptide binding]; other site 909954002070 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 909954002071 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 909954002072 peptide binding site [polypeptide binding]; other site 909954002073 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 909954002074 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 909954002075 trimer interface [polypeptide binding]; other site 909954002076 active site 909954002077 G bulge; other site 909954002078 Transposase; Region: DEDD_Tnp_IS110; pfam01548 909954002079 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 909954002080 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 909954002081 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 909954002082 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 909954002083 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 909954002084 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 909954002085 dimer interface [polypeptide binding]; other site 909954002086 pyridoxal binding site [chemical binding]; other site 909954002087 ATP binding site [chemical binding]; other site 909954002088 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 909954002089 4-oxalocrotonate tautomerase; Provisional; Region: PRK02220 909954002090 active site 1 [active] 909954002091 dimer interface [polypeptide binding]; other site 909954002092 hexamer interface [polypeptide binding]; other site 909954002093 active site 2 [active] 909954002094 Phycobilisome protein; Region: Phycobilisome; cl08227 909954002095 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 909954002096 Uncharacterized conserved protein [Function unknown]; Region: COG1284 909954002097 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 909954002098 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 909954002099 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 909954002100 ArsC family; Region: ArsC; pfam03960 909954002101 putative ArsC-like catalytic residues; other site 909954002102 putative TRX-like catalytic residues [active] 909954002103 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 909954002104 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 909954002105 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 909954002106 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 909954002107 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 909954002108 active site 909954002109 elongation factor P; Validated; Region: PRK00529 909954002110 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 909954002111 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 909954002112 RNA binding site [nucleotide binding]; other site 909954002113 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 909954002114 RNA binding site [nucleotide binding]; other site 909954002115 Asp23 family; Region: Asp23; pfam03780 909954002116 transcription antitermination factor NusB; Region: nusB; TIGR01951 909954002117 putative RNA binding site [nucleotide binding]; other site 909954002118 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 909954002119 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 909954002120 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 909954002121 homodimer interface [polypeptide binding]; other site 909954002122 NADP binding site [chemical binding]; other site 909954002123 substrate binding site [chemical binding]; other site 909954002124 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 909954002125 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 909954002126 generic binding surface II; other site 909954002127 generic binding surface I; other site 909954002128 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 909954002129 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 909954002130 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 909954002131 substrate binding pocket [chemical binding]; other site 909954002132 chain length determination region; other site 909954002133 substrate-Mg2+ binding site; other site 909954002134 catalytic residues [active] 909954002135 aspartate-rich region 1; other site 909954002136 active site lid residues [active] 909954002137 aspartate-rich region 2; other site 909954002138 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 909954002139 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 909954002140 RNA binding surface [nucleotide binding]; other site 909954002141 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 909954002142 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 909954002143 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 909954002144 Walker A/P-loop; other site 909954002145 ATP binding site [chemical binding]; other site 909954002146 Q-loop/lid; other site 909954002147 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 909954002148 ABC transporter signature motif; other site 909954002149 Walker B; other site 909954002150 D-loop; other site 909954002151 H-loop/switch region; other site 909954002152 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 909954002153 catalytic site [active] 909954002154 G-X2-G-X-G-K; other site 909954002155 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 909954002156 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 909954002157 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 909954002158 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 909954002159 ATP binding site [chemical binding]; other site 909954002160 putative Mg++ binding site [ion binding]; other site 909954002161 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 909954002162 nucleotide binding region [chemical binding]; other site 909954002163 ATP-binding site [chemical binding]; other site 909954002164 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 909954002165 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 909954002166 putative active site [active] 909954002167 substrate binding site [chemical binding]; other site 909954002168 putative cosubstrate binding site; other site 909954002169 catalytic site [active] 909954002170 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 909954002171 substrate binding site [chemical binding]; other site 909954002172 16S rRNA methyltransferase B; Provisional; Region: PRK14902 909954002173 NusB family; Region: NusB; pfam01029 909954002174 putative RNA binding site [nucleotide binding]; other site 909954002175 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 909954002176 S-adenosylmethionine binding site [chemical binding]; other site 909954002177 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 909954002178 Protein phosphatase 2C; Region: PP2C; pfam00481 909954002179 active site 909954002180 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 909954002181 Catalytic domain of Protein Kinases; Region: PKc; cd00180 909954002182 active site 909954002183 ATP binding site [chemical binding]; other site 909954002184 substrate binding site [chemical binding]; other site 909954002185 activation loop (A-loop); other site 909954002186 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 909954002187 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 909954002188 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 909954002189 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 909954002190 GTPase RsgA; Reviewed; Region: PRK00098 909954002191 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 909954002192 RNA binding site [nucleotide binding]; other site 909954002193 homodimer interface [polypeptide binding]; other site 909954002194 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 909954002195 GTPase/Zn-binding domain interface [polypeptide binding]; other site 909954002196 GTP/Mg2+ binding site [chemical binding]; other site 909954002197 G4 box; other site 909954002198 G1 box; other site 909954002199 Switch I region; other site 909954002200 G2 box; other site 909954002201 G3 box; other site 909954002202 Switch II region; other site 909954002203 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 909954002204 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 909954002205 substrate binding site [chemical binding]; other site 909954002206 hexamer interface [polypeptide binding]; other site 909954002207 metal binding site [ion binding]; metal-binding site 909954002208 Thiamine pyrophosphokinase; Region: TPK; cd07995 909954002209 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 909954002210 active site 909954002211 dimerization interface [polypeptide binding]; other site 909954002212 thiamine binding site [chemical binding]; other site 909954002213 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 909954002214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 909954002215 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 909954002216 DAK2 domain; Region: Dak2; pfam02734 909954002217 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 909954002218 Y-family of DNA polymerases; Region: PolY; cl12025 909954002219 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 909954002220 ssDNA binding site; other site 909954002221 generic binding surface II; other site 909954002222 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 909954002223 ATP binding site [chemical binding]; other site 909954002224 putative Mg++ binding site [ion binding]; other site 909954002225 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 909954002226 nucleotide binding region [chemical binding]; other site 909954002227 ATP-binding site [chemical binding]; other site 909954002228 putative phosphate acyltransferase; Provisional; Region: PRK05331 909954002229 acyl carrier protein; Provisional; Region: acpP; PRK00982 909954002230 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 909954002231 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 909954002232 Walker A/P-loop; other site 909954002233 ATP binding site [chemical binding]; other site 909954002234 Q-loop/lid; other site 909954002235 ABC transporter signature motif; other site 909954002236 Walker B; other site 909954002237 D-loop; other site 909954002238 H-loop/switch region; other site 909954002239 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 909954002240 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 909954002241 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 909954002242 Walker A/P-loop; other site 909954002243 ATP binding site [chemical binding]; other site 909954002244 Q-loop/lid; other site 909954002245 ABC transporter signature motif; other site 909954002246 Walker B; other site 909954002247 D-loop; other site 909954002248 H-loop/switch region; other site 909954002249 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 909954002250 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 909954002251 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 909954002252 dimer interface [polypeptide binding]; other site 909954002253 conserved gate region; other site 909954002254 putative PBP binding loops; other site 909954002255 ABC-ATPase subunit interface; other site 909954002256 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 909954002257 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 909954002258 dimer interface [polypeptide binding]; other site 909954002259 conserved gate region; other site 909954002260 putative PBP binding loops; other site 909954002261 ABC-ATPase subunit interface; other site 909954002262 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 909954002263 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 909954002264 peptide binding site [polypeptide binding]; other site 909954002265 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 909954002266 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 909954002267 peptide binding site [polypeptide binding]; other site 909954002268 ribonuclease III; Reviewed; Region: rnc; PRK00102 909954002269 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 909954002270 dimerization interface [polypeptide binding]; other site 909954002271 active site 909954002272 metal binding site [ion binding]; metal-binding site 909954002273 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 909954002274 dsRNA binding site [nucleotide binding]; other site 909954002275 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 909954002276 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 909954002277 Walker A/P-loop; other site 909954002278 ATP binding site [chemical binding]; other site 909954002279 Q-loop/lid; other site 909954002280 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 909954002281 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 909954002282 ABC transporter signature motif; other site 909954002283 Walker B; other site 909954002284 D-loop; other site 909954002285 H-loop/switch region; other site 909954002286 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 909954002287 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 909954002288 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 909954002289 P loop; other site 909954002290 GTP binding site [chemical binding]; other site 909954002291 Peptidase family C69; Region: Peptidase_C69; pfam03577 909954002292 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 909954002293 MucBP domain; Region: MucBP; pfam06458 909954002294 MucBP domain; Region: MucBP; pfam06458 909954002295 putative DNA-binding protein; Validated; Region: PRK00118 909954002296 signal recognition particle protein; Provisional; Region: PRK10867 909954002297 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 909954002298 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 909954002299 P loop; other site 909954002300 GTP binding site [chemical binding]; other site 909954002301 Signal peptide binding domain; Region: SRP_SPB; pfam02978 909954002302 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 909954002303 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 909954002304 RimM N-terminal domain; Region: RimM; pfam01782 909954002305 PRC-barrel domain; Region: PRC; pfam05239 909954002306 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 909954002307 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 909954002308 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 909954002309 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 909954002310 Catalytic site [active] 909954002311 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 909954002312 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 909954002313 active site 909954002314 Ap4A binding cleft/pocket [chemical binding]; other site 909954002315 P4 phosphate binding site; other site 909954002316 nudix motif; other site 909954002317 putative P2/P3 phosphate binding site [ion binding]; other site 909954002318 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 909954002319 active site 909954002320 Fe-S cluster binding site [ion binding]; other site 909954002321 LexA repressor; Validated; Region: PRK00215 909954002322 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 909954002323 putative DNA binding site [nucleotide binding]; other site 909954002324 putative Zn2+ binding site [ion binding]; other site 909954002325 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 909954002326 Catalytic site [active] 909954002327 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 909954002328 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 909954002329 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909954002330 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 909954002331 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954002332 Walker A/P-loop; other site 909954002333 ATP binding site [chemical binding]; other site 909954002334 Q-loop/lid; other site 909954002335 ABC transporter signature motif; other site 909954002336 Walker B; other site 909954002337 D-loop; other site 909954002338 H-loop/switch region; other site 909954002339 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 909954002340 Transposase; Region: DEDD_Tnp_IS110; pfam01548 909954002341 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 909954002342 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 909954002343 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909954002344 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 909954002345 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 909954002346 Walker A/P-loop; other site 909954002347 ATP binding site [chemical binding]; other site 909954002348 Q-loop/lid; other site 909954002349 ABC transporter signature motif; other site 909954002350 Walker B; other site 909954002351 D-loop; other site 909954002352 H-loop/switch region; other site 909954002353 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 909954002354 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 909954002355 Transposase; Region: DEDD_Tnp_IS110; pfam01548 909954002356 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 909954002357 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 909954002358 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 909954002359 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 909954002360 S-adenosylmethionine binding site [chemical binding]; other site 909954002361 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 909954002362 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 909954002363 putative acyl-acceptor binding pocket; other site 909954002364 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 909954002365 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 909954002366 S-adenosylmethionine binding site [chemical binding]; other site 909954002367 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 909954002368 GIY-YIG motif/motif A; other site 909954002369 putative active site [active] 909954002370 putative metal binding site [ion binding]; other site 909954002371 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 909954002372 rRNA interaction site [nucleotide binding]; other site 909954002373 S8 interaction site; other site 909954002374 putative laminin-1 binding site; other site 909954002375 elongation factor Ts; Provisional; Region: tsf; PRK09377 909954002376 UBA/TS-N domain; Region: UBA; pfam00627 909954002377 Elongation factor TS; Region: EF_TS; pfam00889 909954002378 Elongation factor TS; Region: EF_TS; pfam00889 909954002379 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 909954002380 putative nucleotide binding site [chemical binding]; other site 909954002381 uridine monophosphate binding site [chemical binding]; other site 909954002382 homohexameric interface [polypeptide binding]; other site 909954002383 ribosome recycling factor; Reviewed; Region: frr; PRK00083 909954002384 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 909954002385 hinge region; other site 909954002386 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14830 909954002387 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 909954002388 catalytic residue [active] 909954002389 putative FPP diphosphate binding site; other site 909954002390 putative FPP binding hydrophobic cleft; other site 909954002391 dimer interface [polypeptide binding]; other site 909954002392 putative IPP diphosphate binding site; other site 909954002393 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 909954002394 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 909954002395 RIP metalloprotease RseP; Region: TIGR00054 909954002396 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 909954002397 active site 909954002398 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 909954002399 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 909954002400 protein binding site [polypeptide binding]; other site 909954002401 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 909954002402 putative substrate binding region [chemical binding]; other site 909954002403 prolyl-tRNA synthetase; Provisional; Region: PRK09194 909954002404 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 909954002405 dimer interface [polypeptide binding]; other site 909954002406 motif 1; other site 909954002407 active site 909954002408 motif 2; other site 909954002409 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 909954002410 putative deacylase active site [active] 909954002411 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 909954002412 active site 909954002413 motif 3; other site 909954002414 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 909954002415 anticodon binding site; other site 909954002416 DNA polymerase III PolC; Validated; Region: polC; PRK00448 909954002417 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 909954002418 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 909954002419 generic binding surface II; other site 909954002420 generic binding surface I; other site 909954002421 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 909954002422 active site 909954002423 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 909954002424 active site 909954002425 catalytic site [active] 909954002426 substrate binding site [chemical binding]; other site 909954002427 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 909954002428 ribosome maturation protein RimP; Reviewed; Region: PRK00092 909954002429 Sm and related proteins; Region: Sm_like; cl00259 909954002430 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 909954002431 putative oligomer interface [polypeptide binding]; other site 909954002432 putative RNA binding site [nucleotide binding]; other site 909954002433 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 909954002434 NusA N-terminal domain; Region: NusA_N; pfam08529 909954002435 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 909954002436 RNA binding site [nucleotide binding]; other site 909954002437 homodimer interface [polypeptide binding]; other site 909954002438 NusA-like KH domain; Region: KH_5; pfam13184 909954002439 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 909954002440 G-X-X-G motif; other site 909954002441 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 909954002442 putative RNA binding cleft [nucleotide binding]; other site 909954002443 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 909954002444 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 909954002445 translation initiation factor IF-2; Validated; Region: infB; PRK05306 909954002446 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 909954002447 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 909954002448 G1 box; other site 909954002449 putative GEF interaction site [polypeptide binding]; other site 909954002450 GTP/Mg2+ binding site [chemical binding]; other site 909954002451 Switch I region; other site 909954002452 G2 box; other site 909954002453 G3 box; other site 909954002454 Switch II region; other site 909954002455 G4 box; other site 909954002456 G5 box; other site 909954002457 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 909954002458 Translation-initiation factor 2; Region: IF-2; pfam11987 909954002459 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 909954002460 ribosome-binding factor A; Provisional; Region: PRK13818 909954002461 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 909954002462 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 909954002463 RNA binding site [nucleotide binding]; other site 909954002464 active site 909954002465 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 909954002466 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 909954002467 active site 909954002468 Riboflavin kinase; Region: Flavokinase; pfam01687 909954002469 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 909954002470 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 909954002471 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 909954002472 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 909954002473 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 909954002474 GrpE; Region: GrpE; pfam01025 909954002475 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 909954002476 dimer interface [polypeptide binding]; other site 909954002477 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 909954002478 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 909954002479 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 909954002480 nucleotide binding site [chemical binding]; other site 909954002481 NEF interaction site [polypeptide binding]; other site 909954002482 SBD interface [polypeptide binding]; other site 909954002483 chaperone protein DnaJ; Provisional; Region: PRK14276 909954002484 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 909954002485 HSP70 interaction site [polypeptide binding]; other site 909954002486 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 909954002487 substrate binding site [polypeptide binding]; other site 909954002488 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 909954002489 Zn binding sites [ion binding]; other site 909954002490 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 909954002491 dimer interface [polypeptide binding]; other site 909954002492 GTP-binding protein LepA; Provisional; Region: PRK05433 909954002493 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 909954002494 G1 box; other site 909954002495 putative GEF interaction site [polypeptide binding]; other site 909954002496 GTP/Mg2+ binding site [chemical binding]; other site 909954002497 Switch I region; other site 909954002498 G2 box; other site 909954002499 G3 box; other site 909954002500 Switch II region; other site 909954002501 G4 box; other site 909954002502 G5 box; other site 909954002503 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 909954002504 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 909954002505 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 909954002506 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 909954002507 active site 909954002508 catalytic site [active] 909954002509 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 909954002510 DHH family; Region: DHH; pfam01368 909954002511 DHHA1 domain; Region: DHHA1; pfam02272 909954002512 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 909954002513 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 909954002514 active site 909954002515 inner membrane transporter YjeM; Provisional; Region: PRK15238 909954002516 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 909954002517 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 909954002518 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 909954002519 putative active site [active] 909954002520 catalytic site [active] 909954002521 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 909954002522 putative active site [active] 909954002523 catalytic site [active] 909954002524 thymidylate synthase; Region: thym_sym; TIGR03284 909954002525 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 909954002526 dimerization interface [polypeptide binding]; other site 909954002527 active site 909954002528 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 909954002529 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 909954002530 folate binding site [chemical binding]; other site 909954002531 NADP+ binding site [chemical binding]; other site 909954002532 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 909954002533 putative substrate translocation pore; other site 909954002534 Major Facilitator Superfamily; Region: MFS_1; pfam07690 909954002535 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 909954002536 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 909954002537 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 909954002538 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 909954002539 motif II; other site 909954002540 Transcriptional regulator [Transcription]; Region: LysR; COG0583 909954002541 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 909954002542 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 909954002543 dimerization interface [polypeptide binding]; other site 909954002544 Integrated prophage 909954002545 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 909954002546 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 909954002547 Int/Topo IB signature motif; other site 909954002548 PemK-like protein; Region: PemK; pfam02452 909954002549 Abi-like protein; Region: Abi_2; pfam07751 909954002550 Domain of unknown function (DUF955); Region: DUF955; pfam06114 909954002551 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 909954002552 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 909954002553 non-specific DNA binding site [nucleotide binding]; other site 909954002554 salt bridge; other site 909954002555 sequence-specific DNA binding site [nucleotide binding]; other site 909954002556 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 909954002557 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 909954002558 non-specific DNA binding site [nucleotide binding]; other site 909954002559 salt bridge; other site 909954002560 sequence-specific DNA binding site [nucleotide binding]; other site 909954002561 AntA/AntB antirepressor; Region: AntA; pfam08346 909954002562 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 909954002563 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 909954002564 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 909954002565 salt bridge; other site 909954002566 non-specific DNA binding site [nucleotide binding]; other site 909954002567 sequence-specific DNA binding site [nucleotide binding]; other site 909954002568 Helix-turn-helix domain; Region: HTH_17; pfam12728 909954002569 Protein of unknown function (DUF1351); Region: DUF1351; pfam07083 909954002570 ERF superfamily; Region: ERF; pfam04404 909954002571 Helix-turn-helix domain; Region: HTH_36; pfam13730 909954002572 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 909954002573 sequence-specific DNA binding site [nucleotide binding]; other site 909954002574 salt bridge; other site 909954002575 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 909954002576 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 909954002577 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 909954002578 Domain of unknown function (DUF4417); Region: DUF4417; pfam14386 909954002579 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 909954002580 Terminase small subunit; Region: Terminase_2; pfam03592 909954002581 phage terminase, large subunit, PBSX family; Region: phage_term_2; TIGR01547 909954002582 Terminase-like family; Region: Terminase_6; pfam03237 909954002583 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 909954002584 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 909954002585 Protein of unknown function (DUF464); Region: DUF464; pfam04327 909954002586 phage putative head morphogenesis protein, SPP1 gp7 family; Region: phageSPP1_gp7; TIGR01641 909954002587 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 909954002588 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 909954002589 Head-Tail Connector Protein gp15 of Bacteriophage SPP1 and similar proteins; Region: gp15; cd08055 909954002590 Phage tail protein; Region: Phage_tail_3; pfam08813 909954002591 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 909954002592 N-acetyl-D-glucosamine binding site [chemical binding]; other site 909954002593 catalytic residue [active] 909954002594 Reovirus sigma C capsid protein; Region: Reo_sigmaC; pfam04582 909954002595 gp58-like protein; Region: Gp58; pfam07902 909954002596 gp58-like protein; Region: Gp58; pfam07902 909954002597 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 909954002598 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 909954002599 active site 909954002600 Bacterial SH3 domain; Region: SH3_5; pfam08460 909954002601 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 909954002602 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 909954002603 active site 909954002604 enolase; Provisional; Region: eno; PRK00077 909954002605 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 909954002606 dimer interface [polypeptide binding]; other site 909954002607 metal binding site [ion binding]; metal-binding site 909954002608 substrate binding pocket [chemical binding]; other site 909954002609 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 909954002610 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954002611 Walker A/P-loop; other site 909954002612 ATP binding site [chemical binding]; other site 909954002613 Q-loop/lid; other site 909954002614 ABC transporter signature motif; other site 909954002615 Walker B; other site 909954002616 D-loop; other site 909954002617 H-loop/switch region; other site 909954002618 ABC transporter; Region: ABC_tran_2; pfam12848 909954002619 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 909954002620 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 909954002621 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 909954002622 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 909954002623 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 909954002624 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 909954002625 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 909954002626 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 909954002627 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 909954002628 active site 909954002629 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 909954002630 sequence-specific DNA binding site [nucleotide binding]; other site 909954002631 salt bridge; other site 909954002632 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; pfam13930 909954002633 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 909954002634 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 909954002635 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 909954002636 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 909954002637 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 909954002638 Walker A/P-loop; other site 909954002639 ATP binding site [chemical binding]; other site 909954002640 Q-loop/lid; other site 909954002641 ABC transporter signature motif; other site 909954002642 Walker B; other site 909954002643 D-loop; other site 909954002644 H-loop/switch region; other site 909954002645 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 909954002646 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 909954002647 dimer interface [polypeptide binding]; other site 909954002648 conserved gate region; other site 909954002649 ABC-ATPase subunit interface; other site 909954002650 fumarate hydratase; Reviewed; Region: fumC; PRK00485 909954002651 Class II fumarases; Region: Fumarase_classII; cd01362 909954002652 active site 909954002653 tetramer interface [polypeptide binding]; other site 909954002654 L-aspartate oxidase; Provisional; Region: PRK06175 909954002655 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 909954002656 Predicted oxidoreductase [General function prediction only]; Region: COG3573 909954002657 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 909954002658 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 909954002659 tetramer (dimer of dimers) interface [polypeptide binding]; other site 909954002660 NAD binding site [chemical binding]; other site 909954002661 dimer interface [polypeptide binding]; other site 909954002662 substrate binding site [chemical binding]; other site 909954002663 Uncharacterized conserved protein [Function unknown]; Region: COG2966 909954002664 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 909954002665 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 909954002666 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 909954002667 active site 909954002668 homodimer interface [polypeptide binding]; other site 909954002669 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 909954002670 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 909954002671 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 909954002672 motif II; other site 909954002673 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 909954002674 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 909954002675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 909954002676 Transposase; Region: HTH_Tnp_1; cl17663 909954002677 Helix-turn-helix domain; Region: HTH_28; pfam13518 909954002678 Integrase core domain; Region: rve; pfam00665 909954002679 Integrase core domain; Region: rve_2; pfam13333 909954002680 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 909954002681 putative deacylase active site [active] 909954002682 Methyltransferase domain; Region: Methyltransf_31; pfam13847 909954002683 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 909954002684 S-adenosylmethionine binding site [chemical binding]; other site 909954002685 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 909954002686 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 909954002687 Zn2+ binding site [ion binding]; other site 909954002688 Mg2+ binding site [ion binding]; other site 909954002689 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 909954002690 synthetase active site [active] 909954002691 NTP binding site [chemical binding]; other site 909954002692 metal binding site [ion binding]; metal-binding site 909954002693 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 909954002694 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 909954002695 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 909954002696 putative active site [active] 909954002697 dimerization interface [polypeptide binding]; other site 909954002698 putative tRNAtyr binding site [nucleotide binding]; other site 909954002699 histidyl-tRNA synthetase; Region: hisS; TIGR00442 909954002700 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 909954002701 dimer interface [polypeptide binding]; other site 909954002702 motif 1; other site 909954002703 active site 909954002704 motif 2; other site 909954002705 motif 3; other site 909954002706 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 909954002707 anticodon binding site; other site 909954002708 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 909954002709 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 909954002710 dimer interface [polypeptide binding]; other site 909954002711 anticodon binding site; other site 909954002712 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 909954002713 homodimer interface [polypeptide binding]; other site 909954002714 motif 1; other site 909954002715 active site 909954002716 motif 2; other site 909954002717 GAD domain; Region: GAD; pfam02938 909954002718 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 909954002719 active site 909954002720 motif 3; other site 909954002721 aromatic amino acid aminotransferase; Validated; Region: PRK07309 909954002722 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 909954002723 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909954002724 homodimer interface [polypeptide binding]; other site 909954002725 catalytic residue [active] 909954002726 methionine sulfoxide reductase B; Provisional; Region: PRK00222 909954002727 SelR domain; Region: SelR; pfam01641 909954002728 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 909954002729 active site 909954002730 catalytic triad [active] 909954002731 oxyanion hole [active] 909954002732 methionine sulfoxide reductase A; Provisional; Region: PRK14054 909954002733 Uncharacterized conserved protein [Function unknown]; Region: COG1284 909954002734 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 909954002735 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 909954002736 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 909954002737 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 909954002738 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 909954002739 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 909954002740 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 909954002741 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 909954002742 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 909954002743 Yqey-like protein; Region: YqeY; pfam09424 909954002744 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 909954002745 PhoH-like protein; Region: PhoH; pfam02562 909954002746 probable rRNA maturation factor YbeY; Region: TIGR00043 909954002747 GTPase Era; Reviewed; Region: era; PRK00089 909954002748 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 909954002749 G1 box; other site 909954002750 GTP/Mg2+ binding site [chemical binding]; other site 909954002751 Switch I region; other site 909954002752 G2 box; other site 909954002753 Switch II region; other site 909954002754 G3 box; other site 909954002755 G4 box; other site 909954002756 G5 box; other site 909954002757 Recombination protein O N terminal; Region: RecO_N; pfam11967 909954002758 DNA repair protein RecO; Region: reco; TIGR00613 909954002759 Recombination protein O C terminal; Region: RecO_C; pfam02565 909954002760 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 909954002761 motif 1; other site 909954002762 dimer interface [polypeptide binding]; other site 909954002763 active site 909954002764 motif 2; other site 909954002765 motif 3; other site 909954002766 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 909954002767 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 909954002768 DNA primase; Validated; Region: dnaG; PRK05667 909954002769 CHC2 zinc finger; Region: zf-CHC2; cl17510 909954002770 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 909954002771 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 909954002772 active site 909954002773 metal binding site [ion binding]; metal-binding site 909954002774 interdomain interaction site; other site 909954002775 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 909954002776 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 909954002777 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 909954002778 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 909954002779 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 909954002780 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 909954002781 DNA binding residues [nucleotide binding] 909954002782 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 909954002783 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 909954002784 dimer interface [polypeptide binding]; other site 909954002785 conserved gate region; other site 909954002786 putative PBP binding loops; other site 909954002787 ABC-ATPase subunit interface; other site 909954002788 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 909954002789 dimer interface [polypeptide binding]; other site 909954002790 conserved gate region; other site 909954002791 putative PBP binding loops; other site 909954002792 ABC-ATPase subunit interface; other site 909954002793 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 909954002794 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 909954002795 Walker A/P-loop; other site 909954002796 ATP binding site [chemical binding]; other site 909954002797 Q-loop/lid; other site 909954002798 ABC transporter signature motif; other site 909954002799 Walker B; other site 909954002800 D-loop; other site 909954002801 H-loop/switch region; other site 909954002802 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 909954002803 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 909954002804 substrate binding pocket [chemical binding]; other site 909954002805 membrane-bound complex binding site; other site 909954002806 hinge residues; other site 909954002807 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 909954002808 Family of unknown function (DUF633); Region: DUF633; pfam04816 909954002809 Uncharacterized conserved protein [Function unknown]; Region: COG0327 909954002810 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 909954002811 peptidase T; Region: peptidase-T; TIGR01882 909954002812 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 909954002813 metal binding site [ion binding]; metal-binding site 909954002814 dimer interface [polypeptide binding]; other site 909954002815 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 909954002816 DNA-binding site [nucleotide binding]; DNA binding site 909954002817 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 909954002818 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 909954002819 Walker A/P-loop; other site 909954002820 ATP binding site [chemical binding]; other site 909954002821 ABC transporter signature motif; other site 909954002822 Walker B; other site 909954002823 D-loop; other site 909954002824 H-loop/switch region; other site 909954002825 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 909954002826 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 909954002827 Catalytic site [active] 909954002828 Clostridial binary toxin B/anthrax toxin PA; Region: Binary_toxB; pfam03495 909954002829 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 909954002830 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 909954002831 S-adenosylmethionine binding site [chemical binding]; other site 909954002832 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 909954002833 hypothetical protein; Provisional; Region: PRK00967 909954002834 Uncharacterized conserved protein [Function unknown]; Region: COG1434 909954002835 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 909954002836 putative active site [active] 909954002837 sugar phosphate phosphatase; Provisional; Region: PRK10513 909954002838 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 909954002839 active site 909954002840 motif I; other site 909954002841 motif II; other site 909954002842 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 909954002843 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 909954002844 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 909954002845 active site 909954002846 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 909954002847 active site 909954002848 dimer interface [polypeptide binding]; other site 909954002849 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 909954002850 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 909954002851 heterodimer interface [polypeptide binding]; other site 909954002852 active site 909954002853 FMN binding site [chemical binding]; other site 909954002854 homodimer interface [polypeptide binding]; other site 909954002855 substrate binding site [chemical binding]; other site 909954002856 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 909954002857 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 909954002858 active site 909954002859 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 909954002860 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 909954002861 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 909954002862 dihydroorotase; Validated; Region: pyrC; PRK09357 909954002863 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 909954002864 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 909954002865 active site 909954002866 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 909954002867 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 909954002868 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 909954002869 catalytic site [active] 909954002870 subunit interface [polypeptide binding]; other site 909954002871 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 909954002872 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 909954002873 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 909954002874 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 909954002875 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 909954002876 ATP-grasp domain; Region: ATP-grasp_4; cl17255 909954002877 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 909954002878 IMP binding site; other site 909954002879 dimer interface [polypeptide binding]; other site 909954002880 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 909954002881 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 909954002882 active site 909954002883 Isochorismatase family; Region: Isochorismatase; pfam00857 909954002884 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 909954002885 catalytic triad [active] 909954002886 conserved cis-peptide bond; other site 909954002887 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 909954002888 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 909954002889 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 909954002890 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 909954002891 putative ADP-binding pocket [chemical binding]; other site 909954002892 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 909954002893 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 909954002894 active site 909954002895 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 909954002896 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 909954002897 Walker A/P-loop; other site 909954002898 ATP binding site [chemical binding]; other site 909954002899 Q-loop/lid; other site 909954002900 ABC transporter signature motif; other site 909954002901 Walker B; other site 909954002902 D-loop; other site 909954002903 H-loop/switch region; other site 909954002904 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 909954002905 FtsX-like permease family; Region: FtsX; pfam02687 909954002906 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 909954002907 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 909954002908 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 909954002909 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 909954002910 active site 909954002911 Zn binding site [ion binding]; other site 909954002912 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 909954002913 dimer interface [polypeptide binding]; other site 909954002914 FMN binding site [chemical binding]; other site 909954002915 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 909954002916 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 909954002917 glycerate kinase; Region: TIGR00045 909954002918 HflC protein; Region: hflC; TIGR01932 909954002919 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 909954002920 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 909954002921 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909954002922 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 909954002923 Walker A/P-loop; other site 909954002924 ATP binding site [chemical binding]; other site 909954002925 Q-loop/lid; other site 909954002926 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909954002927 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 909954002928 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 909954002929 Walker A/P-loop; other site 909954002930 ATP binding site [chemical binding]; other site 909954002931 Q-loop/lid; other site 909954002932 ABC transporter signature motif; other site 909954002933 Walker B; other site 909954002934 D-loop; other site 909954002935 H-loop/switch region; other site 909954002936 enolase; Provisional; Region: eno; PRK00077 909954002937 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 909954002938 dimer interface [polypeptide binding]; other site 909954002939 metal binding site [ion binding]; metal-binding site 909954002940 substrate binding pocket [chemical binding]; other site 909954002941 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 909954002942 Major Facilitator Superfamily; Region: MFS_1; pfam07690 909954002943 putative substrate translocation pore; other site 909954002944 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 909954002945 FMN binding site [chemical binding]; other site 909954002946 dimer interface [polypeptide binding]; other site 909954002947 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909954002948 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 909954002949 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 909954002950 Walker A/P-loop; other site 909954002951 ATP binding site [chemical binding]; other site 909954002952 Q-loop/lid; other site 909954002953 ABC transporter signature motif; other site 909954002954 Walker B; other site 909954002955 D-loop; other site 909954002956 H-loop/switch region; other site 909954002957 addiction module toxin, RelE/StbE family; Region: RelE_StbE; TIGR02385 909954002958 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 909954002959 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 909954002960 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 909954002961 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 909954002962 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 909954002963 Coenzyme A binding pocket [chemical binding]; other site 909954002964 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 909954002965 nucleotide binding site/active site [active] 909954002966 HIT family signature motif; other site 909954002967 catalytic residue [active] 909954002968 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Sulfolobus solfataricus (Ss) and its homologs from archaea and bacteria; Region: NTP-PPase_SsMazG; cd11535 909954002969 metal binding site [ion binding]; metal-binding site 909954002970 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 909954002971 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 909954002972 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 909954002973 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 909954002974 PLD-like domain; Region: PLDc_2; pfam13091 909954002975 homodimer interface [polypeptide binding]; other site 909954002976 putative active site [active] 909954002977 catalytic site [active] 909954002978 Putative serine esterase (DUF676); Region: DUF676; pfam05057 909954002979 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 909954002980 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 909954002981 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 909954002982 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 909954002983 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 909954002984 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 909954002985 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 909954002986 nudix motif; other site 909954002987 hypothetical protein; Provisional; Region: PRK06762 909954002988 AAA domain; Region: AAA_33; pfam13671 909954002989 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 909954002990 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 909954002991 nudix motif; other site 909954002992 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 909954002993 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 909954002994 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 909954002995 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 909954002996 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 909954002997 homodimer interface [polypeptide binding]; other site 909954002998 NADP binding site [chemical binding]; other site 909954002999 substrate binding site [chemical binding]; other site 909954003000 D-ribose pyranase; Provisional; Region: PRK11797 909954003001 Sugar transport protein; Region: Sugar_transport; pfam06800 909954003002 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 909954003003 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 909954003004 putative substrate translocation pore; other site 909954003005 H+ Antiporter protein; Region: 2A0121; TIGR00900 909954003006 Transposase; Region: DEDD_Tnp_IS110; pfam01548 909954003007 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 909954003008 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 909954003009 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 909954003010 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909954003011 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954003012 Walker A/P-loop; other site 909954003013 ATP binding site [chemical binding]; other site 909954003014 Q-loop/lid; other site 909954003015 ABC transporter signature motif; other site 909954003016 Walker B; other site 909954003017 D-loop; other site 909954003018 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 909954003019 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909954003020 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 909954003021 Walker A/P-loop; other site 909954003022 ATP binding site [chemical binding]; other site 909954003023 Q-loop/lid; other site 909954003024 ABC transporter signature motif; other site 909954003025 Walker B; other site 909954003026 D-loop; other site 909954003027 H-loop/switch region; other site 909954003028 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 909954003029 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 909954003030 homotetramer interface [polypeptide binding]; other site 909954003031 FMN binding site [chemical binding]; other site 909954003032 homodimer contacts [polypeptide binding]; other site 909954003033 putative active site [active] 909954003034 putative substrate binding site [chemical binding]; other site 909954003035 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 909954003036 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 909954003037 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 909954003038 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 909954003039 diphosphomevalonate decarboxylase; Region: PLN02407 909954003040 mevalonate kinase; Region: mevalon_kin; TIGR00549 909954003041 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 909954003042 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 909954003043 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 909954003044 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 909954003045 Family description; Region: UvrD_C_2; pfam13538 909954003046 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 909954003047 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 909954003048 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 909954003049 active site 909954003050 catalytic site [active] 909954003051 substrate binding site [chemical binding]; other site 909954003052 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 909954003053 ATP binding site [chemical binding]; other site 909954003054 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 909954003055 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 909954003056 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 909954003057 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 909954003058 putative dimer interface [polypeptide binding]; other site 909954003059 putative anticodon binding site; other site 909954003060 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 909954003061 homodimer interface [polypeptide binding]; other site 909954003062 motif 1; other site 909954003063 motif 2; other site 909954003064 active site 909954003065 motif 3; other site 909954003066 Helix-turn-helix domain; Region: HTH_36; pfam13730 909954003067 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 909954003068 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 909954003069 endonuclease III; Region: ENDO3c; smart00478 909954003070 minor groove reading motif; other site 909954003071 helix-hairpin-helix signature motif; other site 909954003072 substrate binding pocket [chemical binding]; other site 909954003073 active site 909954003074 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 909954003075 Transglycosylase; Region: Transgly; pfam00912 909954003076 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 909954003077 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 909954003078 hypothetical protein; Provisional; Region: PRK13660 909954003079 DivIVA protein; Region: DivIVA; pfam05103 909954003080 DivIVA domain; Region: DivI1A_domain; TIGR03544 909954003081 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 909954003082 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 909954003083 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 909954003084 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 909954003085 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 909954003086 active site 909954003087 metal binding site [ion binding]; metal-binding site 909954003088 Acyltransferase family; Region: Acyl_transf_3; pfam01757 909954003089 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 909954003090 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 909954003091 Potassium binding sites [ion binding]; other site 909954003092 Cesium cation binding sites [ion binding]; other site 909954003093 lipoprotein signal peptidase; Provisional; Region: PRK14797 909954003094 lipoprotein signal peptidase; Provisional; Region: PRK14787 909954003095 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 909954003096 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 909954003097 RNA binding surface [nucleotide binding]; other site 909954003098 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 909954003099 active site 909954003100 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 909954003101 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 909954003102 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 909954003103 conserved cys residue [active] 909954003104 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK12815 909954003105 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 909954003106 ATP-grasp domain; Region: ATP-grasp_4; cl17255 909954003107 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 909954003108 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 909954003109 ATP-grasp domain; Region: ATP-grasp_4; cl17255 909954003110 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 909954003111 IMP binding site; other site 909954003112 dimer interface [polypeptide binding]; other site 909954003113 interdomain contacts; other site 909954003114 partial ornithine binding site; other site 909954003115 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 909954003116 Domain of unknown function (DUF814); Region: DUF814; pfam05670 909954003117 MarR family; Region: MarR_2; pfam12802 909954003118 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 909954003119 EDD domain protein, DegV family; Region: DegV; TIGR00762 909954003120 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 909954003121 Transcriptional regulator [Transcription]; Region: LysR; COG0583 909954003122 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 909954003123 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 909954003124 dimerization interface [polypeptide binding]; other site 909954003125 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 909954003126 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 909954003127 active site 909954003128 DNA binding site [nucleotide binding] 909954003129 Int/Topo IB signature motif; other site 909954003130 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 909954003131 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 909954003132 active site 909954003133 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 909954003134 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 909954003135 ATP binding site [chemical binding]; other site 909954003136 putative Mg++ binding site [ion binding]; other site 909954003137 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 909954003138 nucleotide binding region [chemical binding]; other site 909954003139 ATP-binding site [chemical binding]; other site 909954003140 RQC domain; Region: RQC; pfam09382 909954003141 HRDC domain; Region: HRDC; pfam00570 909954003142 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 909954003143 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 909954003144 DHHA2 domain; Region: DHHA2; pfam02833 909954003145 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 909954003146 putative DNA binding site [nucleotide binding]; other site 909954003147 Transcriptional regulator [Transcription]; Region: LysR; COG0583 909954003148 putative Zn2+ binding site [ion binding]; other site 909954003149 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 909954003150 dimerization interface [polypeptide binding]; other site 909954003151 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 909954003152 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 909954003153 CAP-like domain; other site 909954003154 active site 909954003155 primary dimer interface [polypeptide binding]; other site 909954003156 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 909954003157 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 909954003158 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 909954003159 Mg2+ binding site [ion binding]; other site 909954003160 G-X-G motif; other site 909954003161 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 909954003162 anchoring element; other site 909954003163 dimer interface [polypeptide binding]; other site 909954003164 ATP binding site [chemical binding]; other site 909954003165 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 909954003166 active site 909954003167 putative metal-binding site [ion binding]; other site 909954003168 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 909954003169 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 909954003170 maltose O-acetyltransferase; Provisional; Region: PRK10092 909954003171 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 909954003172 active site 909954003173 substrate binding site [chemical binding]; other site 909954003174 trimer interface [polypeptide binding]; other site 909954003175 CoA binding site [chemical binding]; other site 909954003176 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 909954003177 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 909954003178 active site 909954003179 catalytic tetrad [active] 909954003180 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 909954003181 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 909954003182 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 909954003183 recombination factor protein RarA; Reviewed; Region: PRK13342 909954003184 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 909954003185 Walker A motif; other site 909954003186 ATP binding site [chemical binding]; other site 909954003187 Walker B motif; other site 909954003188 arginine finger; other site 909954003189 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 909954003190 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 909954003191 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 909954003192 active site 909954003193 catalytic tetrad [active] 909954003194 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 909954003195 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909954003196 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954003197 Walker A/P-loop; other site 909954003198 ATP binding site [chemical binding]; other site 909954003199 Q-loop/lid; other site 909954003200 ABC transporter signature motif; other site 909954003201 Walker B; other site 909954003202 D-loop; other site 909954003203 H-loop/switch region; other site 909954003204 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 909954003205 MarR family; Region: MarR; pfam01047 909954003206 potential frameshift: common BLAST hit: gi|42519473|ref|NP_965403.1| transposase 909954003207 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 909954003208 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 909954003209 Transposase; Region: DDE_Tnp_ISL3; pfam01610 909954003210 magnesium-transporting ATPase; Provisional; Region: PRK15122 909954003211 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 909954003212 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 909954003213 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 909954003214 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 909954003215 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 909954003216 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 909954003217 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 909954003218 dimer interface [polypeptide binding]; other site 909954003219 catalytic triad [active] 909954003220 peroxidatic and resolving cysteines [active] 909954003221 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954003222 Walker A/P-loop; other site 909954003223 ATP binding site [chemical binding]; other site 909954003224 Q-loop/lid; other site 909954003225 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 909954003226 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954003227 ABC transporter signature motif; other site 909954003228 Walker B; other site 909954003229 D-loop; other site 909954003230 H-loop/switch region; other site 909954003231 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954003232 AAA domain; Region: AAA_21; pfam13304 909954003233 Walker A/P-loop; other site 909954003234 ATP binding site [chemical binding]; other site 909954003235 Q-loop/lid; other site 909954003236 ABC transporter signature motif; other site 909954003237 Walker B; other site 909954003238 D-loop; other site 909954003239 H-loop/switch region; other site 909954003240 AAA ATPase domain; Region: AAA_16; pfam13191 909954003241 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 909954003242 Walker A motif; other site 909954003243 ATP binding site [chemical binding]; other site 909954003244 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 909954003245 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 909954003246 active site 909954003247 Methyltransferase domain; Region: Methyltransf_23; pfam13489 909954003248 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 909954003249 S-adenosylmethionine binding site [chemical binding]; other site 909954003250 manganese transport protein MntH; Reviewed; Region: PRK00701 909954003251 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 909954003252 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 909954003253 FeS assembly protein SufB; Region: sufB; TIGR01980 909954003254 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 909954003255 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 909954003256 trimerization site [polypeptide binding]; other site 909954003257 active site 909954003258 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 909954003259 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 909954003260 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 909954003261 catalytic residue [active] 909954003262 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 909954003263 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 909954003264 FeS assembly protein SufD; Region: sufD; TIGR01981 909954003265 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 909954003266 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 909954003267 Walker A/P-loop; other site 909954003268 ATP binding site [chemical binding]; other site 909954003269 Q-loop/lid; other site 909954003270 ABC transporter signature motif; other site 909954003271 Walker B; other site 909954003272 D-loop; other site 909954003273 H-loop/switch region; other site 909954003274 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 909954003275 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 909954003276 aromatic amino acid aminotransferase; Validated; Region: PRK07309 909954003277 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 909954003278 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909954003279 homodimer interface [polypeptide binding]; other site 909954003280 catalytic residue [active] 909954003281 dihydrodipicolinate reductase; Provisional; Region: PRK00048 909954003282 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 909954003283 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 909954003284 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 909954003285 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 909954003286 dimer interface [polypeptide binding]; other site 909954003287 active site 909954003288 catalytic residue [active] 909954003289 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 909954003290 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 909954003291 metal binding site [ion binding]; metal-binding site 909954003292 putative dimer interface [polypeptide binding]; other site 909954003293 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 909954003294 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 909954003295 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 909954003296 active site 909954003297 trimer interface [polypeptide binding]; other site 909954003298 substrate binding site [chemical binding]; other site 909954003299 CoA binding site [chemical binding]; other site 909954003300 diaminopimelate decarboxylase; Region: lysA; TIGR01048 909954003301 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 909954003302 active site 909954003303 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 909954003304 substrate binding site [chemical binding]; other site 909954003305 catalytic residues [active] 909954003306 dimer interface [polypeptide binding]; other site 909954003307 aspartate kinase; Reviewed; Region: PRK09034 909954003308 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 909954003309 putative catalytic residues [active] 909954003310 putative nucleotide binding site [chemical binding]; other site 909954003311 putative aspartate binding site [chemical binding]; other site 909954003312 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 909954003313 allosteric regulatory residue; other site 909954003314 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 909954003315 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 909954003316 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 909954003317 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 909954003318 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 909954003319 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 909954003320 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 909954003321 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 909954003322 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 909954003323 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 909954003324 NAD(P) binding site [chemical binding]; other site 909954003325 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 909954003326 Predicted membrane protein [Function unknown]; Region: COG3212 909954003327 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 909954003328 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 909954003329 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 909954003330 dimer interface [polypeptide binding]; other site 909954003331 phosphorylation site [posttranslational modification] 909954003332 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 909954003333 ATP binding site [chemical binding]; other site 909954003334 Mg2+ binding site [ion binding]; other site 909954003335 G-X-G motif; other site 909954003336 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 909954003337 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 909954003338 active site 909954003339 phosphorylation site [posttranslational modification] 909954003340 intermolecular recognition site; other site 909954003341 dimerization interface [polypeptide binding]; other site 909954003342 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 909954003343 DNA binding site [nucleotide binding] 909954003344 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 909954003345 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 909954003346 nudix motif; other site 909954003347 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 909954003348 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 909954003349 motif II; other site 909954003350 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 909954003351 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 909954003352 acetolactate synthase; Reviewed; Region: PRK08617 909954003353 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 909954003354 PYR/PP interface [polypeptide binding]; other site 909954003355 dimer interface [polypeptide binding]; other site 909954003356 TPP binding site [chemical binding]; other site 909954003357 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 909954003358 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 909954003359 TPP-binding site [chemical binding]; other site 909954003360 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 909954003361 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 909954003362 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 909954003363 ABC transporter; Region: ABC_tran_2; pfam12848 909954003364 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 909954003365 Predicted membrane protein [Function unknown]; Region: COG2855 909954003366 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 909954003367 Probable transposase; Region: OrfB_IS605; pfam01385 909954003368 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 909954003369 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 909954003370 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 909954003371 dimerization interface [polypeptide binding]; other site 909954003372 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 909954003373 active site 909954003374 catalytic residues [active] 909954003375 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 909954003376 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 909954003377 Walker A motif; other site 909954003378 ATP binding site [chemical binding]; other site 909954003379 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 909954003380 Walker B motif; other site 909954003381 arginine finger; other site 909954003382 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 909954003383 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 909954003384 active site 909954003385 HslU subunit interaction site [polypeptide binding]; other site 909954003386 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 909954003387 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 909954003388 active site 909954003389 Int/Topo IB signature motif; other site 909954003390 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 909954003391 Glucose inhibited division protein A; Region: GIDA; pfam01134 909954003392 DNA topoisomerase I; Validated; Region: PRK05582 909954003393 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 909954003394 active site 909954003395 interdomain interaction site; other site 909954003396 putative metal-binding site [ion binding]; other site 909954003397 nucleotide binding site [chemical binding]; other site 909954003398 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 909954003399 domain I; other site 909954003400 DNA binding groove [nucleotide binding] 909954003401 phosphate binding site [ion binding]; other site 909954003402 domain II; other site 909954003403 domain III; other site 909954003404 nucleotide binding site [chemical binding]; other site 909954003405 catalytic site [active] 909954003406 domain IV; other site 909954003407 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 909954003408 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 909954003409 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 909954003410 DNA protecting protein DprA; Region: dprA; TIGR00732 909954003411 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 909954003412 RNA/DNA hybrid binding site [nucleotide binding]; other site 909954003413 active site 909954003414 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 909954003415 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 909954003416 GTP/Mg2+ binding site [chemical binding]; other site 909954003417 G4 box; other site 909954003418 G5 box; other site 909954003419 G1 box; other site 909954003420 Switch I region; other site 909954003421 G2 box; other site 909954003422 G3 box; other site 909954003423 Switch II region; other site 909954003424 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 909954003425 C-terminal peptidase (prc); Region: prc; TIGR00225 909954003426 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 909954003427 protein binding site [polypeptide binding]; other site 909954003428 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 909954003429 Catalytic dyad [active] 909954003430 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 909954003431 hypothetical protein; Provisional; Region: PRK13672 909954003432 EDD domain protein, DegV family; Region: DegV; TIGR00762 909954003433 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 909954003434 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 909954003435 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 909954003436 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 909954003437 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 909954003438 active site 909954003439 NTP binding site [chemical binding]; other site 909954003440 metal binding triad [ion binding]; metal-binding site 909954003441 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 909954003442 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 909954003443 Uncharacterized conserved protein [Function unknown]; Region: COG1284 909954003444 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 909954003445 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 909954003446 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 909954003447 Ion transport protein; Region: Ion_trans; pfam00520 909954003448 Ion channel; Region: Ion_trans_2; pfam07885 909954003449 Nnf1; Region: Nnf1; pfam03980 909954003450 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 909954003451 GIY-YIG domain of uncharacterized bacterial protein structurally related to COG3410; Region: GIY-YIG_COG3410; cd10439 909954003452 GIY-YIG motif/motif A; other site 909954003453 putative active site [active] 909954003454 putative metal binding site [ion binding]; other site 909954003455 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 909954003456 Uncharacterized conserved protein [Function unknown]; Region: COG3410 909954003457 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 909954003458 binding surface 909954003459 TPR motif; other site 909954003460 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 909954003461 binding surface 909954003462 TPR motif; other site 909954003463 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 909954003464 IHF dimer interface [polypeptide binding]; other site 909954003465 IHF - DNA interface [nucleotide binding]; other site 909954003466 GTP-binding protein Der; Reviewed; Region: PRK00093 909954003467 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 909954003468 G1 box; other site 909954003469 GTP/Mg2+ binding site [chemical binding]; other site 909954003470 Switch I region; other site 909954003471 G2 box; other site 909954003472 Switch II region; other site 909954003473 G3 box; other site 909954003474 G4 box; other site 909954003475 G5 box; other site 909954003476 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 909954003477 G1 box; other site 909954003478 GTP/Mg2+ binding site [chemical binding]; other site 909954003479 Switch I region; other site 909954003480 G2 box; other site 909954003481 G3 box; other site 909954003482 Switch II region; other site 909954003483 G4 box; other site 909954003484 G5 box; other site 909954003485 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 909954003486 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 909954003487 RNA binding site [nucleotide binding]; other site 909954003488 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 909954003489 RNA binding site [nucleotide binding]; other site 909954003490 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 909954003491 RNA binding site [nucleotide binding]; other site 909954003492 cytidylate kinase; Provisional; Region: cmk; PRK00023 909954003493 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 909954003494 CMP-binding site; other site 909954003495 The sites determining sugar specificity; other site 909954003496 Predicted membrane protein [Function unknown]; Region: COG3601 909954003497 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 909954003498 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 909954003499 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 909954003500 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 909954003501 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 909954003502 RNA binding surface [nucleotide binding]; other site 909954003503 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 909954003504 active site 909954003505 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 909954003506 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 909954003507 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 909954003508 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 909954003509 active site 909954003510 Int/Topo IB signature motif; other site 909954003511 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 909954003512 S1 domain; Region: S1_2; pfam13509 909954003513 pyruvate kinase; Provisional; Region: PRK06354 909954003514 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 909954003515 domain interfaces; other site 909954003516 active site 909954003517 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 909954003518 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 909954003519 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 909954003520 active site 909954003521 ADP/pyrophosphate binding site [chemical binding]; other site 909954003522 dimerization interface [polypeptide binding]; other site 909954003523 allosteric effector site; other site 909954003524 fructose-1,6-bisphosphate binding site; other site 909954003525 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 909954003526 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 909954003527 active site 909954003528 PHP Thumb interface [polypeptide binding]; other site 909954003529 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 909954003530 generic binding surface II; other site 909954003531 generic binding surface I; other site 909954003532 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 909954003533 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 909954003534 active site 909954003535 metal binding site [ion binding]; metal-binding site 909954003536 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 909954003537 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 909954003538 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 909954003539 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 909954003540 NAD(P) binding site [chemical binding]; other site 909954003541 active site 909954003542 ribonuclease Z; Region: RNase_Z; TIGR02651 909954003543 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 909954003544 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 909954003545 catalytic triad [active] 909954003546 catalytic triad [active] 909954003547 oxyanion hole [active] 909954003548 GTPase CgtA; Reviewed; Region: obgE; PRK12297 909954003549 GTP1/OBG; Region: GTP1_OBG; pfam01018 909954003550 Obg GTPase; Region: Obg; cd01898 909954003551 G1 box; other site 909954003552 GTP/Mg2+ binding site [chemical binding]; other site 909954003553 Switch I region; other site 909954003554 G2 box; other site 909954003555 G3 box; other site 909954003556 Switch II region; other site 909954003557 G4 box; other site 909954003558 G5 box; other site 909954003559 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 909954003560 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 909954003561 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 909954003562 GIY-YIG motif/motif A; other site 909954003563 active site 909954003564 catalytic site [active] 909954003565 putative DNA binding site [nucleotide binding]; other site 909954003566 metal binding site [ion binding]; metal-binding site 909954003567 UvrB/uvrC motif; Region: UVR; pfam02151 909954003568 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 909954003569 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 909954003570 DNA binding site [nucleotide binding] 909954003571 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 909954003572 active site 909954003573 dimerization interface [polypeptide binding]; other site 909954003574 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 909954003575 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 909954003576 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 909954003577 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 909954003578 NADH(P)-binding; Region: NAD_binding_10; pfam13460 909954003579 NAD(P) binding site [chemical binding]; other site 909954003580 active site 909954003581 Amino acid permease; Region: AA_permease_2; pfam13520 909954003582 Rib/alpha-like repeat; Region: Rib; pfam08428 909954003583 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 909954003584 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 909954003585 putative active site [active] 909954003586 nucleotide binding site [chemical binding]; other site 909954003587 nudix motif; other site 909954003588 putative metal binding site [ion binding]; other site 909954003589 Peptidase family M48; Region: Peptidase_M48; cl12018 909954003590 CRISPR/Cas system-associated protein Csn2; Region: Csn2_like; cl09913 909954003591 CRISPR type II-A/NMEMI-associated protein Csn2; Region: cas_Csn2; TIGR01866 909954003592 tetramer interface [polypeptide binding]; other site 909954003593 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 909954003594 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; cl00083 909954003595 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; cl00083 909954003596 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 909954003597 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 909954003598 NADP binding site [chemical binding]; other site 909954003599 active site 909954003600 putative substrate binding site [chemical binding]; other site 909954003601 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 909954003602 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 909954003603 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 909954003604 substrate binding site; other site 909954003605 tetramer interface; other site 909954003606 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 909954003607 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 909954003608 NAD binding site [chemical binding]; other site 909954003609 substrate binding site [chemical binding]; other site 909954003610 homodimer interface [polypeptide binding]; other site 909954003611 active site 909954003612 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 909954003613 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 909954003614 DNA binding residues [nucleotide binding] 909954003615 dimer interface [polypeptide binding]; other site 909954003616 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 909954003617 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 909954003618 S-adenosylmethionine binding site [chemical binding]; other site 909954003619 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 909954003620 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 909954003621 Acyltransferase family; Region: Acyl_transf_3; pfam01757 909954003622 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 909954003623 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 909954003624 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 909954003625 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 909954003626 UDP-galactopyranose mutase; Region: GLF; pfam03275 909954003627 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 909954003628 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 909954003629 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 909954003630 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 909954003631 active site 909954003632 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 909954003633 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 909954003634 active site 909954003635 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 909954003636 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; pfam04101 909954003637 Oligosaccharide biosynthesis protein Alg14 like; Region: Alg14; pfam08660 909954003638 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 909954003639 Bacterial sugar transferase; Region: Bac_transf; pfam02397 909954003640 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 909954003641 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 909954003642 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 909954003643 Chain length determinant protein; Region: Wzz; cl15801 909954003644 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 909954003645 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 909954003646 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 909954003647 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 909954003648 catalytic residues [active] 909954003649 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 909954003650 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 909954003651 catalytic residues [active] 909954003652 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 909954003653 Low molecular weight phosphatase family; Region: LMWPc; cd00115 909954003654 active site 909954003655 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 909954003656 G1 box; other site 909954003657 GTP/Mg2+ binding site [chemical binding]; other site 909954003658 Switch I region; other site 909954003659 G2 box; other site 909954003660 G3 box; other site 909954003661 Switch II region; other site 909954003662 G4 box; other site 909954003663 G5 box; other site 909954003664 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 909954003665 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 909954003666 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 909954003667 Walker A motif; other site 909954003668 ATP binding site [chemical binding]; other site 909954003669 Walker B motif; other site 909954003670 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 909954003671 trigger factor; Provisional; Region: tig; PRK01490 909954003672 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 909954003673 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 909954003674 elongation factor Tu; Reviewed; Region: PRK00049 909954003675 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 909954003676 G1 box; other site 909954003677 GEF interaction site [polypeptide binding]; other site 909954003678 GTP/Mg2+ binding site [chemical binding]; other site 909954003679 Switch I region; other site 909954003680 G2 box; other site 909954003681 G3 box; other site 909954003682 Switch II region; other site 909954003683 G4 box; other site 909954003684 G5 box; other site 909954003685 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 909954003686 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 909954003687 Antibiotic Binding Site [chemical binding]; other site 909954003688 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 909954003689 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 909954003690 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 909954003691 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 909954003692 16S/18S rRNA binding site [nucleotide binding]; other site 909954003693 S13e-L30e interaction site [polypeptide binding]; other site 909954003694 25S rRNA binding site [nucleotide binding]; other site 909954003695 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 909954003696 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 909954003697 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 909954003698 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 909954003699 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 909954003700 Competence protein; Region: Competence; pfam03772 909954003701 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 909954003702 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 909954003703 SLBB domain; Region: SLBB; pfam10531 909954003704 comEA protein; Region: comE; TIGR01259 909954003705 Helix-hairpin-helix motif; Region: HHH; pfam00633 909954003706 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 909954003707 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 909954003708 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 909954003709 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 909954003710 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 909954003711 active site 909954003712 (T/H)XGH motif; other site 909954003713 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 909954003714 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 909954003715 S-adenosylmethionine binding site [chemical binding]; other site 909954003716 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; pfam09902 909954003717 cell division protein FtsW; Region: ftsW; TIGR02614 909954003718 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 909954003719 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 909954003720 putative GEF interaction site [polypeptide binding]; other site 909954003721 G1 box; other site 909954003722 GTP/Mg2+ binding site [chemical binding]; other site 909954003723 Switch I region; other site 909954003724 G2 box; other site 909954003725 G3 box; other site 909954003726 Switch II region; other site 909954003727 G4 box; other site 909954003728 G5 box; other site 909954003729 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 909954003730 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 909954003731 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 909954003732 active site 909954003733 catalytic residues [active] 909954003734 metal binding site [ion binding]; metal-binding site 909954003735 Protein of unknown function (DUF1447); Region: DUF1447; pfam07288 909954003736 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 909954003737 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 909954003738 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 909954003739 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 909954003740 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 909954003741 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 909954003742 AAA domain; Region: AAA_30; pfam13604 909954003743 Family description; Region: UvrD_C_2; pfam13538 909954003744 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 909954003745 binding surface 909954003746 TPR motif; other site 909954003747 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 909954003748 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 909954003749 binding surface 909954003750 TPR motif; other site 909954003751 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 909954003752 catalytic core [active] 909954003753 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 909954003754 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 909954003755 Putative amino acid metabolism; Region: DUF1831; pfam08866 909954003756 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 909954003757 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 909954003758 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 909954003759 catalytic residue [active] 909954003760 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 909954003761 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 909954003762 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 909954003763 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 909954003764 dimer interface [polypeptide binding]; other site 909954003765 ADP-ribose binding site [chemical binding]; other site 909954003766 active site 909954003767 nudix motif; other site 909954003768 metal binding site [ion binding]; metal-binding site 909954003769 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 909954003770 DNA-binding site [nucleotide binding]; DNA binding site 909954003771 RNA-binding motif; other site 909954003772 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 909954003773 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 909954003774 active site 909954003775 HIGH motif; other site 909954003776 nucleotide binding site [chemical binding]; other site 909954003777 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 909954003778 active site 909954003779 KMSKS motif; other site 909954003780 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 909954003781 tRNA binding surface [nucleotide binding]; other site 909954003782 anticodon binding site; other site 909954003783 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 909954003784 DivIVA protein; Region: DivIVA; pfam05103 909954003785 DivIVA domain; Region: DivI1A_domain; TIGR03544 909954003786 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 909954003787 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 909954003788 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 909954003789 RNA binding surface [nucleotide binding]; other site 909954003790 YGGT family; Region: YGGT; pfam02325 909954003791 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 909954003792 cell division protein FtsZ; Validated; Region: PRK09330 909954003793 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 909954003794 nucleotide binding site [chemical binding]; other site 909954003795 SulA interaction site; other site 909954003796 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 909954003797 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 909954003798 nucleotide binding site [chemical binding]; other site 909954003799 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 909954003800 Cell division protein FtsA; Region: FtsA; pfam14450 909954003801 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 909954003802 Cell division protein FtsQ; Region: FtsQ; pfam03799 909954003803 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 909954003804 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 909954003805 active site 909954003806 homodimer interface [polypeptide binding]; other site 909954003807 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 909954003808 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 909954003809 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 909954003810 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 909954003811 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 909954003812 Mg++ binding site [ion binding]; other site 909954003813 putative catalytic motif [active] 909954003814 putative substrate binding site [chemical binding]; other site 909954003815 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 909954003816 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 909954003817 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 909954003818 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 909954003819 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 909954003820 Cell division protein FtsL; Region: FtsL; cl11433 909954003821 MraW methylase family; Region: Methyltransf_5; pfam01795 909954003822 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 909954003823 cell division protein MraZ; Reviewed; Region: PRK00326 909954003824 MraZ protein; Region: MraZ; pfam02381 909954003825 MraZ protein; Region: MraZ; pfam02381 909954003826 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 909954003827 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 909954003828 rod shape-determining protein MreC; Provisional; Region: PRK13922 909954003829 rod shape-determining protein MreC; Region: MreC; pfam04085 909954003830 rod shape-determining protein MreB; Provisional; Region: PRK13927 909954003831 MreB and similar proteins; Region: MreB_like; cd10225 909954003832 nucleotide binding site [chemical binding]; other site 909954003833 Mg binding site [ion binding]; other site 909954003834 putative protofilament interaction site [polypeptide binding]; other site 909954003835 RodZ interaction site [polypeptide binding]; other site 909954003836 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 909954003837 MPN+ (JAMM) motif; other site 909954003838 Zinc-binding site [ion binding]; other site 909954003839 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 909954003840 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 909954003841 motif II; other site 909954003842 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 909954003843 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 909954003844 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 909954003845 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 909954003846 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 909954003847 active site 909954003848 HIGH motif; other site 909954003849 nucleotide binding site [chemical binding]; other site 909954003850 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 909954003851 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 909954003852 active site 909954003853 KMSKS motif; other site 909954003854 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 909954003855 tRNA binding surface [nucleotide binding]; other site 909954003856 anticodon binding site; other site 909954003857 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 909954003858 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 909954003859 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 909954003860 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 909954003861 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 909954003862 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 909954003863 motif II; other site 909954003864 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 909954003865 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 909954003866 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 909954003867 RNA binding surface [nucleotide binding]; other site 909954003868 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 909954003869 active site 909954003870 uracil binding [chemical binding]; other site 909954003871 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 909954003872 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 909954003873 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 909954003874 Ligand Binding Site [chemical binding]; other site 909954003875 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 909954003876 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 909954003877 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 909954003878 catalytic residue [active] 909954003879 Septation ring formation regulator, EzrA; Region: EzrA; pfam06160 909954003880 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 909954003881 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 909954003882 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 909954003883 RNA binding surface [nucleotide binding]; other site 909954003884 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 909954003885 recombination factor protein RarA; Reviewed; Region: PRK13342 909954003886 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 909954003887 Walker A motif; other site 909954003888 ATP binding site [chemical binding]; other site 909954003889 Walker B motif; other site 909954003890 arginine finger; other site 909954003891 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 909954003892 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 909954003893 Ligand Binding Site [chemical binding]; other site 909954003894 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 909954003895 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 909954003896 hypothetical protein; Provisional; Region: PRK14379 909954003897 rod shape-determining protein MreB; Provisional; Region: PRK13930 909954003898 MreB and similar proteins; Region: MreB_like; cd10225 909954003899 nucleotide binding site [chemical binding]; other site 909954003900 Mg binding site [ion binding]; other site 909954003901 putative protofilament interaction site [polypeptide binding]; other site 909954003902 RodZ interaction site [polypeptide binding]; other site 909954003903 Protein of unknown function (DUF1146); Region: DUF1146; pfam06612 909954003904 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 909954003905 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 909954003906 gamma subunit interface [polypeptide binding]; other site 909954003907 epsilon subunit interface [polypeptide binding]; other site 909954003908 LBP interface [polypeptide binding]; other site 909954003909 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 909954003910 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 909954003911 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 909954003912 alpha subunit interaction interface [polypeptide binding]; other site 909954003913 Walker A motif; other site 909954003914 ATP binding site [chemical binding]; other site 909954003915 Walker B motif; other site 909954003916 inhibitor binding site; inhibition site 909954003917 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 909954003918 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 909954003919 core domain interface [polypeptide binding]; other site 909954003920 delta subunit interface [polypeptide binding]; other site 909954003921 epsilon subunit interface [polypeptide binding]; other site 909954003922 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 909954003923 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 909954003924 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 909954003925 beta subunit interaction interface [polypeptide binding]; other site 909954003926 Walker A motif; other site 909954003927 ATP binding site [chemical binding]; other site 909954003928 Walker B motif; other site 909954003929 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 909954003930 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 909954003931 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 909954003932 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 909954003933 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 909954003934 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 909954003935 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 909954003936 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 909954003937 active site 909954003938 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 909954003939 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 909954003940 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 909954003941 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 909954003942 S-adenosylmethionine binding site [chemical binding]; other site 909954003943 peptide chain release factor 1; Validated; Region: prfA; PRK00591 909954003944 This domain is found in peptide chain release factors; Region: PCRF; smart00937 909954003945 RF-1 domain; Region: RF-1; pfam00472 909954003946 thymidine kinase; Provisional; Region: PRK04296 909954003947 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 909954003948 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 909954003949 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 909954003950 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 909954003951 Beta-lactamase; Region: Beta-lactamase; pfam00144 909954003952 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 909954003953 Major Facilitator Superfamily; Region: MFS_1; pfam07690 909954003954 putative substrate translocation pore; other site 909954003955 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 909954003956 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 909954003957 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 909954003958 active site 909954003959 dimer interface [polypeptide binding]; other site 909954003960 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 909954003961 dimer interface [polypeptide binding]; other site 909954003962 active site 909954003963 VanZ like family; Region: VanZ; cl01971 909954003964 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 909954003965 Sulfatase; Region: Sulfatase; pfam00884 909954003966 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 909954003967 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 909954003968 dimerization interface [polypeptide binding]; other site 909954003969 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 909954003970 dimer interface [polypeptide binding]; other site 909954003971 phosphorylation site [posttranslational modification] 909954003972 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 909954003973 ATP binding site [chemical binding]; other site 909954003974 Mg2+ binding site [ion binding]; other site 909954003975 G-X-G motif; other site 909954003976 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 909954003977 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 909954003978 active site 909954003979 phosphorylation site [posttranslational modification] 909954003980 intermolecular recognition site; other site 909954003981 dimerization interface [polypeptide binding]; other site 909954003982 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 909954003983 DNA binding site [nucleotide binding] 909954003984 SdpI/YhfL protein family; Region: SdpI; pfam13630 909954003985 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 909954003986 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 909954003987 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 909954003988 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 909954003989 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909954003990 homodimer interface [polypeptide binding]; other site 909954003991 catalytic residue [active] 909954003992 Protein of unknown function (DUF3737); Region: DUF3737; pfam12541 909954003993 Protein of unknown function (DUF3737); Region: DUF3737; pfam12541 909954003994 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 909954003995 active site 909954003996 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 909954003997 propionate/acetate kinase; Provisional; Region: PRK12379 909954003998 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 909954003999 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 909954004000 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 909954004001 S-adenosylmethionine binding site [chemical binding]; other site 909954004002 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 909954004003 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 909954004004 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 909954004005 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 909954004006 Type II/IV secretion system protein; Region: T2SE; pfam00437 909954004007 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 909954004008 Walker A motif; other site 909954004009 ATP binding site [chemical binding]; other site 909954004010 Walker B motif; other site 909954004011 hypothetical protein; Validated; Region: PRK00110 909954004012 Predicted integral membrane protein [Function unknown]; Region: COG5652 909954004013 Flavoprotein; Region: Flavoprotein; pfam02441 909954004014 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 909954004015 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 909954004016 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 909954004017 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 909954004018 intersubunit interface [polypeptide binding]; other site 909954004019 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 909954004020 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 909954004021 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 909954004022 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 909954004023 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 909954004024 camphor resistance protein CrcB; Provisional; Region: PRK14220 909954004025 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 909954004026 sugar phosphate phosphatase; Provisional; Region: PRK10513 909954004027 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 909954004028 active site 909954004029 motif I; other site 909954004030 motif II; other site 909954004031 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 909954004032 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 909954004033 active site 909954004034 substrate binding site [chemical binding]; other site 909954004035 metal binding site [ion binding]; metal-binding site 909954004036 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 909954004037 YbbR-like protein; Region: YbbR; pfam07949 909954004038 YbbR-like protein; Region: YbbR; pfam07949 909954004039 Uncharacterized conserved protein [Function unknown]; Region: COG1624 909954004040 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 909954004041 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 909954004042 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 909954004043 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 909954004044 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 909954004045 dimer interface [polypeptide binding]; other site 909954004046 ABC-ATPase subunit interface; other site 909954004047 putative PBP binding loops; other site 909954004048 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 909954004049 dimer interface [polypeptide binding]; other site 909954004050 conserved gate region; other site 909954004051 putative PBP binding loops; other site 909954004052 ABC-ATPase subunit interface; other site 909954004053 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 909954004054 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 909954004055 Walker A/P-loop; other site 909954004056 ATP binding site [chemical binding]; other site 909954004057 Q-loop/lid; other site 909954004058 ABC transporter signature motif; other site 909954004059 Walker B; other site 909954004060 D-loop; other site 909954004061 H-loop/switch region; other site 909954004062 TOBE domain; Region: TOBE_2; pfam08402 909954004063 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 909954004064 FAD binding domain; Region: FAD_binding_4; pfam01565 909954004065 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 909954004066 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 909954004067 active site 909954004068 catalytic site [active] 909954004069 substrate binding site [chemical binding]; other site 909954004070 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 909954004071 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 909954004072 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 909954004073 ligand binding site [chemical binding]; other site 909954004074 active site 909954004075 UGI interface [polypeptide binding]; other site 909954004076 catalytic site [active] 909954004077 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 909954004078 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 909954004079 active site 909954004080 motif I; other site 909954004081 motif II; other site 909954004082 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 909954004083 Tubby C 2; Region: Tub_2; cl02043 909954004084 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 909954004085 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 909954004086 Coenzyme A binding pocket [chemical binding]; other site 909954004087 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 909954004088 SmpB-tmRNA interface; other site 909954004089 ribonuclease R; Region: RNase_R; TIGR02063 909954004090 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 909954004091 RNB domain; Region: RNB; pfam00773 909954004092 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 909954004093 RNA binding site [nucleotide binding]; other site 909954004094 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 909954004095 enolase; Provisional; Region: eno; PRK00077 909954004096 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 909954004097 dimer interface [polypeptide binding]; other site 909954004098 metal binding site [ion binding]; metal-binding site 909954004099 substrate binding pocket [chemical binding]; other site 909954004100 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 909954004101 triosephosphate isomerase; Provisional; Region: PRK14567 909954004102 substrate binding site [chemical binding]; other site 909954004103 dimer interface [polypeptide binding]; other site 909954004104 catalytic triad [active] 909954004105 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 909954004106 Phosphoglycerate kinase; Region: PGK; pfam00162 909954004107 substrate binding site [chemical binding]; other site 909954004108 hinge regions; other site 909954004109 ADP binding site [chemical binding]; other site 909954004110 catalytic site [active] 909954004111 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 909954004112 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 909954004113 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 909954004114 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 909954004115 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 909954004116 Amino acid permease; Region: AA_permease_2; pfam13520 909954004117 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 909954004118 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 909954004119 oligomer interface [polypeptide binding]; other site 909954004120 active site residues [active] 909954004121 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 909954004122 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 909954004123 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 909954004124 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 909954004125 phosphate binding site [ion binding]; other site 909954004126 putative substrate binding pocket [chemical binding]; other site 909954004127 dimer interface [polypeptide binding]; other site 909954004128 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 909954004129 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 909954004130 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 909954004131 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 909954004132 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 909954004133 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 909954004134 excinuclease ABC subunit B; Provisional; Region: PRK05298 909954004135 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 909954004136 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 909954004137 ATP-binding site [chemical binding]; other site 909954004138 ATP binding site [chemical binding]; other site 909954004139 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 909954004140 nucleotide binding region [chemical binding]; other site 909954004141 ATP-binding site [chemical binding]; other site 909954004142 Ultra-violet resistance protein B; Region: UvrB; pfam12344 909954004143 UvrB/uvrC motif; Region: UVR; pfam02151 909954004144 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 909954004145 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 909954004146 active site 909954004147 substrate binding site [chemical binding]; other site 909954004148 metal binding site [ion binding]; metal-binding site 909954004149 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 909954004150 active site 909954004151 catalytic residues [active] 909954004152 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 909954004153 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 909954004154 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 909954004155 galactokinase; Provisional; Region: PRK05322 909954004156 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 909954004157 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 909954004158 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 909954004159 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 909954004160 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 909954004161 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 909954004162 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 909954004163 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 909954004164 HPr interaction site; other site 909954004165 glycerol kinase (GK) interaction site [polypeptide binding]; other site 909954004166 active site 909954004167 phosphorylation site [posttranslational modification] 909954004168 Transcriptional regulators [Transcription]; Region: PurR; COG1609 909954004169 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 909954004170 DNA binding site [nucleotide binding] 909954004171 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 909954004172 putative dimerization interface [polypeptide binding]; other site 909954004173 putative ligand binding site [chemical binding]; other site 909954004174 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 909954004175 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 909954004176 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 909954004177 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 909954004178 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 909954004179 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 909954004180 NAD binding site [chemical binding]; other site 909954004181 homodimer interface [polypeptide binding]; other site 909954004182 active site 909954004183 substrate binding site [chemical binding]; other site 909954004184 Transposase; Region: DEDD_Tnp_IS110; pfam01548 909954004185 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 909954004186 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 909954004187 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 909954004188 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 909954004189 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 909954004190 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 909954004191 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 909954004192 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 909954004193 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 909954004194 HPr kinase/phosphorylase; Provisional; Region: PRK05428 909954004195 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 909954004196 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 909954004197 Hpr binding site; other site 909954004198 active site 909954004199 homohexamer subunit interaction site [polypeptide binding]; other site 909954004200 peptide chain release factor 2; Provisional; Region: PRK05589 909954004201 This domain is found in peptide chain release factors; Region: PCRF; smart00937 909954004202 RF-1 domain; Region: RF-1; pfam00472 909954004203 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12906 909954004204 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 909954004205 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 909954004206 nucleotide binding region [chemical binding]; other site 909954004207 ATP-binding site [chemical binding]; other site 909954004208 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 909954004209 30S subunit binding site; other site 909954004210 comF family protein; Region: comF; TIGR00201 909954004211 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 909954004212 active site 909954004213 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 909954004214 ATP binding site [chemical binding]; other site 909954004215 putative Mg++ binding site [ion binding]; other site 909954004216 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 909954004217 nucleotide binding region [chemical binding]; other site 909954004218 ATP-binding site [chemical binding]; other site 909954004219 Uncharacterized conserved protein [Function unknown]; Region: COG1739 909954004220 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 909954004221 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 909954004222 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 909954004223 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 909954004224 Mg++ binding site [ion binding]; other site 909954004225 putative catalytic motif [active] 909954004226 substrate binding site [chemical binding]; other site 909954004227 phosphodiesterase; Provisional; Region: PRK12704 909954004228 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 909954004229 Zn2+ binding site [ion binding]; other site 909954004230 Mg2+ binding site [ion binding]; other site 909954004231 recombinase A; Provisional; Region: recA; PRK09354 909954004232 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 909954004233 hexamer interface [polypeptide binding]; other site 909954004234 Walker A motif; other site 909954004235 ATP binding site [chemical binding]; other site 909954004236 Walker B motif; other site 909954004237 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 909954004238 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 909954004239 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 909954004240 non-specific DNA binding site [nucleotide binding]; other site 909954004241 salt bridge; other site 909954004242 sequence-specific DNA binding site [nucleotide binding]; other site 909954004243 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 909954004244 classical (c) SDRs; Region: SDR_c; cd05233 909954004245 NAD(P) binding site [chemical binding]; other site 909954004246 active site 909954004247 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 909954004248 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 909954004249 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 909954004250 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 909954004251 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 909954004252 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 909954004253 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 909954004254 Protein of unknown function (DUF1149); Region: DUF1149; cl11551 909954004255 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 909954004256 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 909954004257 Domain of unknown function DUF20; Region: UPF0118; pfam01594 909954004258 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 909954004259 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 909954004260 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 909954004261 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 909954004262 Walker A motif; other site 909954004263 ATP binding site [chemical binding]; other site 909954004264 Walker B motif; other site 909954004265 arginine finger; other site 909954004266 Uncharacterized conserved protein [Function unknown]; Region: COG3410 909954004267 myosin-cross-reactive antigen; Provisional; Region: PRK13977 909954004268 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 909954004269 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 909954004270 active site 909954004271 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 909954004272 ATP-NAD kinase; Region: NAD_kinase; pfam01513 909954004273 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 909954004274 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 909954004275 synthetase active site [active] 909954004276 NTP binding site [chemical binding]; other site 909954004277 metal binding site [ion binding]; metal-binding site 909954004278 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 909954004279 putative active site [active] 909954004280 putative metal binding residues [ion binding]; other site 909954004281 signature motif; other site 909954004282 putative triphosphate binding site [ion binding]; other site 909954004283 Thioredoxin; Region: Thioredoxin_5; pfam13743 909954004284 Competence protein CoiA-like family; Region: CoiA; cl11541 909954004285 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 909954004286 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 909954004287 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 909954004288 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 909954004289 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 909954004290 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 909954004291 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 909954004292 dimerization domain swap beta strand [polypeptide binding]; other site 909954004293 regulatory protein interface [polypeptide binding]; other site 909954004294 active site 909954004295 regulatory phosphorylation site [posttranslational modification]; other site 909954004296 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 909954004297 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 909954004298 Walker A motif; other site 909954004299 ATP binding site [chemical binding]; other site 909954004300 Walker B motif; other site 909954004301 arginine finger; other site 909954004302 UvrB/uvrC motif; Region: UVR; pfam02151 909954004303 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 909954004304 Walker A motif; other site 909954004305 ATP binding site [chemical binding]; other site 909954004306 Walker B motif; other site 909954004307 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 909954004308 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 909954004309 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 909954004310 G1 box; other site 909954004311 putative GEF interaction site [polypeptide binding]; other site 909954004312 GTP/Mg2+ binding site [chemical binding]; other site 909954004313 Switch I region; other site 909954004314 G2 box; other site 909954004315 G3 box; other site 909954004316 Switch II region; other site 909954004317 G4 box; other site 909954004318 G5 box; other site 909954004319 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 909954004320 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 909954004321 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 909954004322 Transporter associated domain; Region: CorC_HlyC; pfam03471 909954004323 hypothetical protein; Provisional; Region: PRK13662 909954004324 recombination regulator RecX; Provisional; Region: recX; PRK14135 909954004325 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 909954004326 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 909954004327 S-adenosylmethionine binding site [chemical binding]; other site 909954004328 "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 909954004329 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 909954004330 dimer interface [polypeptide binding]; other site 909954004331 active site 909954004332 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 909954004333 homodimer interface [polypeptide binding]; other site 909954004334 catalytic residues [active] 909954004335 NAD binding site [chemical binding]; other site 909954004336 substrate binding pocket [chemical binding]; other site 909954004337 flexible flap; other site 909954004338 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 909954004339 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 909954004340 dimer interface [polypeptide binding]; other site 909954004341 active site 909954004342 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 909954004343 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 909954004344 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 909954004345 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 909954004346 active site 909954004347 motif I; other site 909954004348 motif II; other site 909954004349 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 909954004350 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 909954004351 putative substrate translocation pore; other site 909954004352 Major Facilitator Superfamily; Region: MFS_1; pfam07690 909954004353 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 909954004354 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 909954004355 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 909954004356 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 909954004357 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 909954004358 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 909954004359 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 909954004360 active site residue [active] 909954004361 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 909954004362 Rhomboid family; Region: Rhomboid; pfam01694 909954004363 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 909954004364 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 909954004365 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 909954004366 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 909954004367 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 909954004368 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 909954004369 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 909954004370 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 909954004371 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 909954004372 YceG-like family; Region: YceG; pfam02618 909954004373 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 909954004374 dimerization interface [polypeptide binding]; other site 909954004375 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 909954004376 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 909954004377 putative tRNA-binding site [nucleotide binding]; other site 909954004378 B3/4 domain; Region: B3_4; pfam03483 909954004379 tRNA synthetase B5 domain; Region: B5; smart00874 909954004380 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 909954004381 dimer interface [polypeptide binding]; other site 909954004382 motif 1; other site 909954004383 motif 3; other site 909954004384 motif 2; other site 909954004385 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 909954004386 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 909954004387 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 909954004388 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 909954004389 dimer interface [polypeptide binding]; other site 909954004390 motif 1; other site 909954004391 active site 909954004392 motif 2; other site 909954004393 motif 3; other site 909954004394 Predicted transcriptional regulators [Transcription]; Region: COG1733 909954004395 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 909954004396 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 909954004397 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 909954004398 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 909954004399 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 909954004400 OxaA-like protein precursor; Provisional; Region: PRK02463 909954004401 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 909954004402 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 909954004403 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 909954004404 dimerization interface [polypeptide binding]; other site 909954004405 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 909954004406 dimer interface [polypeptide binding]; other site 909954004407 phosphorylation site [posttranslational modification] 909954004408 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 909954004409 ATP binding site [chemical binding]; other site 909954004410 Mg2+ binding site [ion binding]; other site 909954004411 G-X-G motif; other site 909954004412 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 909954004413 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 909954004414 active site 909954004415 phosphorylation site [posttranslational modification] 909954004416 intermolecular recognition site; other site 909954004417 dimerization interface [polypeptide binding]; other site 909954004418 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 909954004419 DNA binding site [nucleotide binding] 909954004420 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 909954004421 hypothetical protein; Provisional; Region: PRK13670 909954004422 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 909954004423 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 909954004424 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 909954004425 Zn2+ binding site [ion binding]; other site 909954004426 Mg2+ binding site [ion binding]; other site 909954004427 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 909954004428 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 909954004429 active site 909954004430 (T/H)XGH motif; other site 909954004431 GTPase YqeH; Provisional; Region: PRK13796 909954004432 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 909954004433 GTP/Mg2+ binding site [chemical binding]; other site 909954004434 G4 box; other site 909954004435 G5 box; other site 909954004436 G1 box; other site 909954004437 Switch I region; other site 909954004438 G2 box; other site 909954004439 G3 box; other site 909954004440 Switch II region; other site 909954004441 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 909954004442 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 909954004443 active site 909954004444 motif I; other site 909954004445 motif II; other site 909954004446 adenosine deaminase; Provisional; Region: PRK09358 909954004447 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 909954004448 active site 909954004449 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 909954004450 23S rRNA binding site [nucleotide binding]; other site 909954004451 L21 binding site [polypeptide binding]; other site 909954004452 L13 binding site [polypeptide binding]; other site 909954004453 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 909954004454 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 909954004455 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 909954004456 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 909954004457 CAAX protease self-immunity; Region: Abi; pfam02517 909954004458 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 909954004459 LytTr DNA-binding domain; Region: LytTR; smart00850 909954004460 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 909954004461 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 909954004462 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 909954004463 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 909954004464 active site 909954004465 dimer interface [polypeptide binding]; other site 909954004466 motif 1; other site 909954004467 motif 2; other site 909954004468 motif 3; other site 909954004469 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 909954004470 anticodon binding site; other site 909954004471 primosomal protein DnaI; Reviewed; Region: PRK08939 909954004472 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 909954004473 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 909954004474 Walker A motif; other site 909954004475 ATP binding site [chemical binding]; other site 909954004476 Walker B motif; other site 909954004477 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 909954004478 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 909954004479 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 909954004480 ATP cone domain; Region: ATP-cone; pfam03477 909954004481 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 909954004482 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 909954004483 CoA-binding site [chemical binding]; other site 909954004484 ATP-binding [chemical binding]; other site 909954004485 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 909954004486 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 909954004487 DNA binding site [nucleotide binding] 909954004488 catalytic residue [active] 909954004489 H2TH interface [polypeptide binding]; other site 909954004490 putative catalytic residues [active] 909954004491 turnover-facilitating residue; other site 909954004492 intercalation triad [nucleotide binding]; other site 909954004493 8OG recognition residue [nucleotide binding]; other site 909954004494 putative reading head residues; other site 909954004495 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 909954004496 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 909954004497 DNA polymerase I; Provisional; Region: PRK05755 909954004498 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 909954004499 active site 909954004500 metal binding site 1 [ion binding]; metal-binding site 909954004501 putative 5' ssDNA interaction site; other site 909954004502 metal binding site 3; metal-binding site 909954004503 metal binding site 2 [ion binding]; metal-binding site 909954004504 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 909954004505 putative DNA binding site [nucleotide binding]; other site 909954004506 putative metal binding site [ion binding]; other site 909954004507 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 909954004508 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 909954004509 active site 909954004510 DNA binding site [nucleotide binding] 909954004511 catalytic site [active] 909954004512 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 909954004513 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 909954004514 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 909954004515 active site 909954004516 phosphorylation site [posttranslational modification] 909954004517 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 909954004518 active pocket/dimerization site; other site 909954004519 active site 909954004520 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 909954004521 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 909954004522 ligand binding site [chemical binding]; other site 909954004523 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 909954004524 Histidine kinase; Region: HisKA_3; pfam07730 909954004525 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 909954004526 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 909954004527 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 909954004528 active site 909954004529 phosphorylation site [posttranslational modification] 909954004530 intermolecular recognition site; other site 909954004531 dimerization interface [polypeptide binding]; other site 909954004532 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 909954004533 DNA binding residues [nucleotide binding] 909954004534 dimerization interface [polypeptide binding]; other site 909954004535 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 909954004536 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 909954004537 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 909954004538 intersubunit interface [polypeptide binding]; other site 909954004539 active site 909954004540 catalytic residue [active] 909954004541 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 909954004542 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 909954004543 DNA-binding site [nucleotide binding]; DNA binding site 909954004544 UTRA domain; Region: UTRA; pfam07702 909954004545 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 909954004546 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 909954004547 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 909954004548 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 909954004549 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 909954004550 putative tRNA-binding site [nucleotide binding]; other site 909954004551 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 909954004552 catalytic residues [active] 909954004553 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 909954004554 S-adenosylmethionine binding site [chemical binding]; other site 909954004555 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 909954004556 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 909954004557 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 909954004558 Walker A/P-loop; other site 909954004559 ATP binding site [chemical binding]; other site 909954004560 Q-loop/lid; other site 909954004561 ABC transporter signature motif; other site 909954004562 Walker B; other site 909954004563 D-loop; other site 909954004564 H-loop/switch region; other site 909954004565 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 909954004566 HIT family signature motif; other site 909954004567 catalytic residue [active] 909954004568 YtxH-like protein; Region: YtxH; cl02079 909954004569 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 909954004570 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 909954004571 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 909954004572 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 909954004573 generic binding surface II; other site 909954004574 generic binding surface I; other site 909954004575 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 909954004576 Zn2+ binding site [ion binding]; other site 909954004577 Mg2+ binding site [ion binding]; other site 909954004578 P-loop containing region of AAA domain; Region: AAA_29; cl17516 909954004579 AAA domain; Region: AAA_23; pfam13476 909954004580 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 909954004581 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 909954004582 active site 909954004583 metal binding site [ion binding]; metal-binding site 909954004584 DNA binding site [nucleotide binding] 909954004585 hypothetical protein; Provisional; Region: PRK13676 909954004586 Transglycosylase; Region: Transgly; pfam00912 909954004587 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 909954004588 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 909954004589 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 909954004590 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 909954004591 active site 909954004592 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 909954004593 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 909954004594 nudix motif; other site 909954004595 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 909954004596 Phosphotransferase enzyme family; Region: APH; pfam01636 909954004597 active site 909954004598 ATP binding site [chemical binding]; other site 909954004599 Beta-lactamase; Region: Beta-lactamase; pfam00144 909954004600 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 909954004601 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 909954004602 ligand binding site [chemical binding]; other site 909954004603 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 909954004604 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 909954004605 ligand binding site [chemical binding]; other site 909954004606 flexible hinge region; other site 909954004607 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 909954004608 non-specific DNA interactions [nucleotide binding]; other site 909954004609 DNA binding site [nucleotide binding] 909954004610 sequence specific DNA binding site [nucleotide binding]; other site 909954004611 putative cAMP binding site [chemical binding]; other site 909954004612 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 909954004613 metal-binding site [ion binding] 909954004614 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 909954004615 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 909954004616 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 909954004617 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 909954004618 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 909954004619 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 909954004620 ATP binding site [chemical binding]; other site 909954004621 putative Mg++ binding site [ion binding]; other site 909954004622 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 909954004623 nucleotide binding region [chemical binding]; other site 909954004624 ATP-binding site [chemical binding]; other site 909954004625 Type III restriction-modification system 909954004626 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 909954004627 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 909954004628 VRR-NUC domain; Region: VRR_NUC; cl17748 909954004629 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 909954004630 DNA methylase; Region: N6_N4_Mtase; pfam01555 909954004631 DNA methylase; Region: N6_N4_Mtase; cl17433 909954004632 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 909954004633 non-specific DNA binding site [nucleotide binding]; other site 909954004634 salt bridge; other site 909954004635 sequence-specific DNA binding site [nucleotide binding]; other site 909954004636 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 909954004637 Cpl-7 lysozyme C-terminal domain; Region: Cpl-7; smart01095 909954004638 Cpl-7 lysozyme C-terminal domain; Region: Cpl-7; smart01095 909954004639 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 909954004640 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 909954004641 catalytic residues [active] 909954004642 catalytic nucleophile [active] 909954004643 Recombinase; Region: Recombinase; pfam07508 909954004644 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 909954004645 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 909954004646 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 909954004647 catalytic residues [active] 909954004648 catalytic nucleophile [active] 909954004649 Recombinase; Region: Recombinase; pfam07508 909954004650 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 909954004651 Abortive infection C-terminus; Region: Abi_C; pfam14355 909954004652 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 909954004653 TRAM domain; Region: TRAM; pfam01938 909954004654 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 909954004655 S-adenosylmethionine binding site [chemical binding]; other site 909954004656 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 909954004657 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 909954004658 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 909954004659 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 909954004660 Walker A/P-loop; other site 909954004661 ATP binding site [chemical binding]; other site 909954004662 Q-loop/lid; other site 909954004663 ABC transporter signature motif; other site 909954004664 Walker B; other site 909954004665 D-loop; other site 909954004666 H-loop/switch region; other site 909954004667 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 909954004668 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 909954004669 Probable transposase; Region: OrfB_IS605; pfam01385 909954004670 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 909954004671 Transposase; Region: DEDD_Tnp_IS110; pfam01548 909954004672 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 909954004673 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 909954004674 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; cl17774 909954004675 hypothetical protein; Provisional; Region: PRK13661 909954004676 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 909954004677 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 909954004678 Walker A/P-loop; other site 909954004679 ATP binding site [chemical binding]; other site 909954004680 Q-loop/lid; other site 909954004681 ABC transporter signature motif; other site 909954004682 Walker B; other site 909954004683 D-loop; other site 909954004684 H-loop/switch region; other site 909954004685 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 909954004686 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 909954004687 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 909954004688 Walker A/P-loop; other site 909954004689 ATP binding site [chemical binding]; other site 909954004690 Q-loop/lid; other site 909954004691 ABC transporter signature motif; other site 909954004692 Walker B; other site 909954004693 D-loop; other site 909954004694 H-loop/switch region; other site 909954004695 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 909954004696 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 909954004697 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 909954004698 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 909954004699 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 909954004700 Ligand binding site; other site 909954004701 metal-binding site 909954004702 glycosyltransferase, SP_1767 family; Region: glyco_access_1; TIGR03728 909954004703 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 909954004704 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 909954004705 Ligand binding site; other site 909954004706 metal-binding site 909954004707 glycosyltransferase, SP_1767 family; Region: glyco_access_1; TIGR03728 909954004708 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 909954004709 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 909954004710 active site 909954004711 motif I; other site 909954004712 motif II; other site 909954004713 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 909954004714 putative lipid kinase; Reviewed; Region: PRK13337 909954004715 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 909954004716 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 909954004717 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 909954004718 GatB domain; Region: GatB_Yqey; smart00845 909954004719 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 909954004720 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 909954004721 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 909954004722 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 909954004723 putative dimer interface [polypeptide binding]; other site 909954004724 CamS sex pheromone cAM373 precursor; Region: CamS; pfam07537 909954004725 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 909954004726 putative dimer interface [polypeptide binding]; other site 909954004727 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 909954004728 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 909954004729 nucleotide binding pocket [chemical binding]; other site 909954004730 K-X-D-G motif; other site 909954004731 catalytic site [active] 909954004732 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 909954004733 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 909954004734 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 909954004735 Dimer interface [polypeptide binding]; other site 909954004736 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 909954004737 Part of AAA domain; Region: AAA_19; pfam13245 909954004738 Family description; Region: UvrD_C_2; pfam13538 909954004739 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 909954004740 Predicted membrane protein [Function unknown]; Region: COG4684 909954004741 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 909954004742 hypothetical protein; Provisional; Region: PRK04351 909954004743 SprT homologues; Region: SprT; cl01182 909954004744 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 909954004745 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 909954004746 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 909954004747 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 909954004748 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 909954004749 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 909954004750 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 909954004751 non-specific DNA binding site [nucleotide binding]; other site 909954004752 salt bridge; other site 909954004753 sequence-specific DNA binding site [nucleotide binding]; other site 909954004754 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 909954004755 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 909954004756 Walker A/P-loop; other site 909954004757 ATP binding site [chemical binding]; other site 909954004758 Q-loop/lid; other site 909954004759 ABC transporter signature motif; other site 909954004760 Walker B; other site 909954004761 D-loop; other site 909954004762 H-loop/switch region; other site 909954004763 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 909954004764 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 909954004765 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 909954004766 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 909954004767 Soluble P-type ATPase [General function prediction only]; Region: COG4087 909954004768 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 909954004769 stage V sporulation protein K; Region: spore_V_K; TIGR02881 909954004770 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 909954004771 Walker A motif; other site 909954004772 ATP binding site [chemical binding]; other site 909954004773 Walker B motif; other site 909954004774 arginine finger; other site 909954004775 NAD synthetase; Reviewed; Region: nadE; PRK00768 909954004776 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 909954004777 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 909954004778 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 909954004779 active site 909954004780 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 909954004781 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 909954004782 active site 909954004783 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 909954004784 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 909954004785 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 909954004786 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 909954004787 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 909954004788 active site 909954004789 nucleotide binding site [chemical binding]; other site 909954004790 HIGH motif; other site 909954004791 KMSKS motif; other site 909954004792 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 909954004793 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 909954004794 DNA-binding site [nucleotide binding]; DNA binding site 909954004795 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 909954004796 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 909954004797 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 909954004798 active site residue [active] 909954004799 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 909954004800 tetramer (dimer of dimers) interface [polypeptide binding]; other site 909954004801 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 909954004802 NAD binding site [chemical binding]; other site 909954004803 dimer interface [polypeptide binding]; other site 909954004804 substrate binding site [chemical binding]; other site 909954004805 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 909954004806 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 909954004807 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 909954004808 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 909954004809 Coenzyme A binding pocket [chemical binding]; other site 909954004810 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 909954004811 active site 909954004812 DNA binding site [nucleotide binding] 909954004813 Int/Topo IB signature motif; other site 909954004814 Plasmid replication protein; Region: Rep_2; pfam01719 909954004815 RNA helicase; Region: RNA_helicase; pfam00910 909954004816 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 909954004817 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 909954004818 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 909954004819 potential frameshift: common BLAST hit: gi|42519473|ref|NP_965403.1| transposase 909954004820 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 909954004821 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 909954004822 Transposase; Region: DDE_Tnp_ISL3; pfam01610 909954004823 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 909954004824 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 909954004825 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 909954004826 active site 909954004827 catalytic tetrad [active] 909954004828 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 909954004829 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 909954004830 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 909954004831 TIGR02452 family protein; Region: TIGR02452 909954004832 Uncharacterized protein conserved in bacteria (DUF2263); Region: DUF2263; pfam10021 909954004833 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 909954004834 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 909954004835 NAD binding site [chemical binding]; other site 909954004836 homodimer interface [polypeptide binding]; other site 909954004837 active site 909954004838 substrate binding site [chemical binding]; other site 909954004839 CRISPR-associated helicase Cas3, subtype CYANO; Region: cas3_cyano; TIGR03158 909954004840 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 909954004841 ATP binding site [chemical binding]; other site 909954004842 putative Mg++ binding site [ion binding]; other site 909954004843 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 909954004844 nucleotide binding region [chemical binding]; other site 909954004845 ATP-binding site [chemical binding]; other site 909954004846 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 909954004847 AAA ATPase domain; Region: AAA_16; pfam13191 909954004848 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 909954004849 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 909954004850 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 909954004851 putative active site [active] 909954004852 putative NTP binding site [chemical binding]; other site 909954004853 putative nucleic acid binding site [nucleotide binding]; other site 909954004854 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 909954004855 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 909954004856 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 909954004857 putative catalytic cysteine [active] 909954004858 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 909954004859 putative active site [active] 909954004860 metal binding site [ion binding]; metal-binding site 909954004861 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 909954004862 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 909954004863 Sulfatase; Region: Sulfatase; pfam00884 909954004864 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 909954004865 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 909954004866 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 909954004867 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 909954004868 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 909954004869 putative ADP-binding pocket [chemical binding]; other site 909954004870 seryl-tRNA synthetase; Provisional; Region: PRK05431 909954004871 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 909954004872 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 909954004873 dimer interface [polypeptide binding]; other site 909954004874 active site 909954004875 motif 1; other site 909954004876 motif 2; other site 909954004877 motif 3; other site 909954004878 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 909954004879 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 909954004880 Uncharacterized conserved protein [Function unknown]; Region: COG0398 909954004881 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 909954004882 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 909954004883 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 909954004884 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 909954004885 salt bridge; other site 909954004886 non-specific DNA binding site [nucleotide binding]; other site 909954004887 sequence-specific DNA binding site [nucleotide binding]; other site 909954004888 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 909954004889 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 909954004890 NAD(P) binding site [chemical binding]; other site 909954004891 catalytic residues [active] 909954004892 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 909954004893 Double zinc ribbon; Region: DZR; pfam12773 909954004894 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 909954004895 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 909954004896 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 909954004897 active site 909954004898 motif I; other site 909954004899 motif II; other site 909954004900 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 909954004901 MMPL family; Region: MMPL; pfam03176 909954004902 Predicted membrane protein [Function unknown]; Region: COG1511 909954004903 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 909954004904 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 909954004905 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 909954004906 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 909954004907 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 909954004908 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 909954004909 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 909954004910 nucleotide binding site [chemical binding]; other site 909954004911 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 909954004912 Coenzyme A binding pocket [chemical binding]; other site 909954004913 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 909954004914 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 909954004915 MarR family; Region: MarR; pfam01047 909954004916 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 909954004917 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 909954004918 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 909954004919 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 909954004920 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 909954004921 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 909954004922 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 909954004923 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 909954004924 dimer interface [polypeptide binding]; other site 909954004925 conserved gate region; other site 909954004926 putative PBP binding loops; other site 909954004927 ABC-ATPase subunit interface; other site 909954004928 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 909954004929 dimer interface [polypeptide binding]; other site 909954004930 conserved gate region; other site 909954004931 putative PBP binding loops; other site 909954004932 ABC-ATPase subunit interface; other site 909954004933 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 909954004934 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 909954004935 Walker A/P-loop; other site 909954004936 ATP binding site [chemical binding]; other site 909954004937 Q-loop/lid; other site 909954004938 ABC transporter signature motif; other site 909954004939 Walker B; other site 909954004940 D-loop; other site 909954004941 H-loop/switch region; other site 909954004942 TOBE domain; Region: TOBE_2; pfam08402 909954004943 Peptidase family C69; Region: Peptidase_C69; pfam03577 909954004944 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 909954004945 Probable transposase; Region: OrfB_IS605; pfam01385 909954004946 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 909954004947 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 909954004948 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 909954004949 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 909954004950 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 909954004951 active site 909954004952 catalytic tetrad [active] 909954004953 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 909954004954 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 909954004955 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 909954004956 active site 909954004957 catalytic site [active] 909954004958 substrate binding site [chemical binding]; other site 909954004959 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 909954004960 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 909954004961 Predicted membrane protein [Function unknown]; Region: COG2323 909954004962 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 909954004963 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 909954004964 peptidase T; Region: peptidase-T; TIGR01882 909954004965 metal binding site [ion binding]; metal-binding site 909954004966 dimer interface [polypeptide binding]; other site 909954004967 PAS domain; Region: PAS_10; pfam13596 909954004968 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 909954004969 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 909954004970 MucBP domain; Region: MucBP; pfam06458 909954004971 MucBP domain; Region: MucBP; pfam06458 909954004972 MucBP domain; Region: MucBP; pfam06458 909954004973 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 909954004974 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 909954004975 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 909954004976 HPr interaction site; other site 909954004977 glycerol kinase (GK) interaction site [polypeptide binding]; other site 909954004978 active site 909954004979 phosphorylation site [posttranslational modification] 909954004980 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 909954004981 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 909954004982 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 909954004983 putative active site [active] 909954004984 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 909954004985 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 909954004986 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 909954004987 active site turn [active] 909954004988 phosphorylation site [posttranslational modification] 909954004989 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 909954004990 active site turn [active] 909954004991 phosphorylation site [posttranslational modification] 909954004992 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 909954004993 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 909954004994 NAD(P) binding site [chemical binding]; other site 909954004995 LDH/MDH dimer interface [polypeptide binding]; other site 909954004996 substrate binding site [chemical binding]; other site 909954004997 PAS domain; Region: PAS_10; pfam13596 909954004998 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 909954004999 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 909954005000 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 909954005001 substrate binding site [chemical binding]; other site 909954005002 THF binding site; other site 909954005003 zinc-binding site [ion binding]; other site 909954005004 S-ribosylhomocysteinase; Provisional; Region: PRK02260 909954005005 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 909954005006 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 909954005007 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 909954005008 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 909954005009 active pocket/dimerization site; other site 909954005010 active site 909954005011 phosphorylation site [posttranslational modification] 909954005012 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 909954005013 active site 909954005014 phosphorylation site [posttranslational modification] 909954005015 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 909954005016 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 909954005017 peptide binding site [polypeptide binding]; other site 909954005018 EamA-like transporter family; Region: EamA; pfam00892 909954005019 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 909954005020 EamA-like transporter family; Region: EamA; pfam00892 909954005021 potential frameshift: common BLAST hit: gi|116630227|ref|YP_815399.1| trehalose PTS trehalose component IIBC 909954005022 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cl00164 909954005023 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 909954005024 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cl00164 909954005025 active site turn [active] 909954005026 phosphorylation site [posttranslational modification] 909954005027 elongation factor P; Validated; Region: PRK00529 909954005028 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 909954005029 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 909954005030 RNA binding site [nucleotide binding]; other site 909954005031 Elongation factor P, C-terminal; Region: Elong-fact-P_C; pfam09285 909954005032 RNA binding site [nucleotide binding]; other site 909954005033 pantothenate kinase; Provisional; Region: PRK05439 909954005034 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 909954005035 ATP-binding site [chemical binding]; other site 909954005036 CoA-binding site [chemical binding]; other site 909954005037 Mg2+-binding site [ion binding]; other site 909954005038 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 909954005039 active site 909954005040 catalytic triad [active] 909954005041 oxyanion hole [active] 909954005042 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 909954005043 putative active site [active] 909954005044 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 909954005045 Part of AAA domain; Region: AAA_19; pfam13245 909954005046 Family description; Region: UvrD_C_2; pfam13538 909954005047 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 909954005048 active site 909954005049 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 909954005050 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 909954005051 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 909954005052 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 909954005053 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 909954005054 motif II; other site 909954005055 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 909954005056 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 909954005057 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 909954005058 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 909954005059 putative active site [active] 909954005060 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 909954005061 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 909954005062 putative active site cavity [active] 909954005063 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 909954005064 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 909954005065 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 909954005066 active site turn [active] 909954005067 phosphorylation site [posttranslational modification] 909954005068 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 909954005069 HPr interaction site; other site 909954005070 glycerol kinase (GK) interaction site [polypeptide binding]; other site 909954005071 active site 909954005072 phosphorylation site [posttranslational modification] 909954005073 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 909954005074 active site 909954005075 putative catalytic site [active] 909954005076 DNA binding site [nucleotide binding] 909954005077 putative phosphate binding site [ion binding]; other site 909954005078 metal binding site A [ion binding]; metal-binding site 909954005079 AP binding site [nucleotide binding]; other site 909954005080 metal binding site B [ion binding]; metal-binding site 909954005081 protein-export membrane protein SecD; Region: secD; TIGR01129 909954005082 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 909954005083 catalytic core [active] 909954005084 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 909954005085 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 909954005086 Walker A/P-loop; other site 909954005087 ATP binding site [chemical binding]; other site 909954005088 Q-loop/lid; other site 909954005089 ABC transporter signature motif; other site 909954005090 Walker B; other site 909954005091 D-loop; other site 909954005092 H-loop/switch region; other site 909954005093 Amino acid permease; Region: AA_permease_2; pfam13520 909954005094 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 909954005095 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 909954005096 HflX GTPase family; Region: HflX; cd01878 909954005097 G1 box; other site 909954005098 GTP/Mg2+ binding site [chemical binding]; other site 909954005099 Switch I region; other site 909954005100 G2 box; other site 909954005101 G3 box; other site 909954005102 Switch II region; other site 909954005103 G4 box; other site 909954005104 G5 box; other site 909954005105 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 909954005106 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 909954005107 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 909954005108 NlpC/P60 family; Region: NLPC_P60; pfam00877 909954005109 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 909954005110 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 909954005111 catalytic site [active] 909954005112 G-X2-G-X-G-K; other site 909954005113 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 909954005114 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 909954005115 dimer interface [polypeptide binding]; other site 909954005116 putative radical transfer pathway; other site 909954005117 diiron center [ion binding]; other site 909954005118 tyrosyl radical; other site 909954005119 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 909954005120 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 909954005121 putative active site [active] 909954005122 putative NTP binding site [chemical binding]; other site 909954005123 putative nucleic acid binding site [nucleotide binding]; other site 909954005124 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 909954005125 PemK-like protein; Region: PemK; pfam02452 909954005126 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 909954005127 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 909954005128 Uncharacterized conserved protein [Function unknown]; Region: COG2966 909954005129 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 909954005130 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 909954005131 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 909954005132 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954005133 Walker A/P-loop; other site 909954005134 ATP binding site [chemical binding]; other site 909954005135 Q-loop/lid; other site 909954005136 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 909954005137 ABC transporter signature motif; other site 909954005138 Walker B; other site 909954005139 D-loop; other site 909954005140 ABC transporter; Region: ABC_tran_2; pfam12848 909954005141 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 909954005142 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 909954005143 oligoendopeptidase F; Region: pepF; TIGR00181 909954005144 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 909954005145 active site 909954005146 Zn binding site [ion binding]; other site 909954005147 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 909954005148 L-lactate permease; Region: Lactate_perm; cl00701 909954005149 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 909954005150 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 909954005151 ABC-ATPase subunit interface; other site 909954005152 dimer interface [polypeptide binding]; other site 909954005153 putative PBP binding regions; other site 909954005154 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 909954005155 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 909954005156 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 909954005157 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 909954005158 intersubunit interface [polypeptide binding]; other site 909954005159 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 909954005160 dimerization interface [polypeptide binding]; other site 909954005161 putative DNA binding site [nucleotide binding]; other site 909954005162 putative Zn2+ binding site [ion binding]; other site 909954005163 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 909954005164 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 909954005165 Walker A/P-loop; other site 909954005166 ATP binding site [chemical binding]; other site 909954005167 Q-loop/lid; other site 909954005168 ABC transporter signature motif; other site 909954005169 Walker B; other site 909954005170 D-loop; other site 909954005171 H-loop/switch region; other site 909954005172 Putative exporter of polyketide antibiotics [Cell envelope biogenesis, outer membrane]; Region: TnrB3; COG3559 909954005173 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 909954005174 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 909954005175 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 909954005176 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 909954005177 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 909954005178 active site 909954005179 motif I; other site 909954005180 motif II; other site 909954005181 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 909954005182 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 909954005183 MucBP domain; Region: MucBP; pfam06458 909954005184 MucBP domain; Region: MucBP; pfam06458 909954005185 MucBP domain; Region: MucBP; pfam06458 909954005186 MucBP domain; Region: MucBP; pfam06458 909954005187 MucBP domain; Region: MucBP; pfam06458 909954005188 MucBP domain; Region: MucBP; pfam06458 909954005189 MucBP domain; Region: MucBP; pfam06458 909954005190 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 909954005191 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 909954005192 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 909954005193 active site 909954005194 phosphorylation site [posttranslational modification] 909954005195 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 909954005196 active site 909954005197 P-loop; other site 909954005198 phosphorylation site [posttranslational modification] 909954005199 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 909954005200 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 909954005201 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 909954005202 putative substrate binding site [chemical binding]; other site 909954005203 putative ATP binding site [chemical binding]; other site 909954005204 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 909954005205 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 909954005206 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 909954005207 putative alpha-glucosidase; Provisional; Region: PRK10658 909954005208 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 909954005209 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 909954005210 trimer interface [polypeptide binding]; other site 909954005211 active site 909954005212 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 909954005213 catalytic site [active] 909954005214 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 909954005215 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 909954005216 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954005217 Walker A/P-loop; other site 909954005218 ATP binding site [chemical binding]; other site 909954005219 Q-loop/lid; other site 909954005220 ABC transporter signature motif; other site 909954005221 Walker B; other site 909954005222 D-loop; other site 909954005223 H-loop/switch region; other site 909954005224 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 909954005225 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 909954005226 aspartate racemase; Region: asp_race; TIGR00035 909954005227 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 909954005228 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 909954005229 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 909954005230 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 909954005231 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 909954005232 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 909954005233 dimer interface [polypeptide binding]; other site 909954005234 phosphorylation site [posttranslational modification] 909954005235 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 909954005236 ATP binding site [chemical binding]; other site 909954005237 Mg2+ binding site [ion binding]; other site 909954005238 G-X-G motif; other site 909954005239 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 909954005240 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 909954005241 active site 909954005242 phosphorylation site [posttranslational modification] 909954005243 intermolecular recognition site; other site 909954005244 dimerization interface [polypeptide binding]; other site 909954005245 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 909954005246 DNA binding site [nucleotide binding] 909954005247 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909954005248 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 909954005249 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 909954005250 Walker A/P-loop; other site 909954005251 ATP binding site [chemical binding]; other site 909954005252 Q-loop/lid; other site 909954005253 ABC transporter signature motif; other site 909954005254 Walker B; other site 909954005255 D-loop; other site 909954005256 H-loop/switch region; other site 909954005257 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 909954005258 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909954005259 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954005260 Walker A/P-loop; other site 909954005261 ATP binding site [chemical binding]; other site 909954005262 Q-loop/lid; other site 909954005263 ABC transporter signature motif; other site 909954005264 Walker B; other site 909954005265 D-loop; other site 909954005266 H-loop/switch region; other site 909954005267 Protein of unknown function (DUF1129); Region: DUF1129; pfam06570 909954005268 GTP-binding protein YchF; Reviewed; Region: PRK09601 909954005269 YchF GTPase; Region: YchF; cd01900 909954005270 G1 box; other site 909954005271 GTP/Mg2+ binding site [chemical binding]; other site 909954005272 Switch I region; other site 909954005273 G2 box; other site 909954005274 Switch II region; other site 909954005275 G3 box; other site 909954005276 G4 box; other site 909954005277 G5 box; other site 909954005278 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 909954005279 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 909954005280 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 909954005281 ParB-like nuclease domain; Region: ParB; smart00470 909954005282 KorB domain; Region: KorB; pfam08535 909954005283 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 909954005284 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 909954005285 P-loop; other site 909954005286 Magnesium ion binding site [ion binding]; other site 909954005287 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 909954005288 Magnesium ion binding site [ion binding]; other site 909954005289 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 909954005290 ParB-like nuclease domain; Region: ParB; smart00470 909954005291 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 909954005292 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 909954005293 S-adenosylmethionine binding site [chemical binding]; other site 909954005294 Colicin V production protein; Region: Colicin_V; pfam02674 909954005295 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 909954005296 ApbE family; Region: ApbE; pfam02424 909954005297 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 909954005298 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 909954005299 Uncharacterized conserved protein [Function unknown]; Region: COG3589 909954005300 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 909954005301 Predicted flavoprotein [General function prediction only]; Region: COG0431 909954005302 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 909954005303 Predicted flavoprotein [General function prediction only]; Region: COG0431 909954005304 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 909954005305 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 909954005306 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 909954005307 putative active site [active] 909954005308 putative NTP binding site [chemical binding]; other site 909954005309 putative nucleic acid binding site [nucleotide binding]; other site 909954005310 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 909954005311 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 909954005312 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 909954005313 WHG domain; Region: WHG; pfam13305 909954005314 Peptidase family C69; Region: Peptidase_C69; pfam03577 909954005315 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 909954005316 beta-galactosidase; Region: BGL; TIGR03356 909954005317 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 909954005318 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 909954005319 active site turn [active] 909954005320 phosphorylation site [posttranslational modification] 909954005321 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 909954005322 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 909954005323 HPr interaction site; other site 909954005324 glycerol kinase (GK) interaction site [polypeptide binding]; other site 909954005325 active site 909954005326 phosphorylation site [posttranslational modification] 909954005327 transcriptional antiterminator BglG; Provisional; Region: PRK09772 909954005328 CAT RNA binding domain; Region: CAT_RBD; smart01061 909954005329 PRD domain; Region: PRD; pfam00874 909954005330 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 909954005331 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 909954005332 Walker A/P-loop; other site 909954005333 ATP binding site [chemical binding]; other site 909954005334 Q-loop/lid; other site 909954005335 ABC transporter signature motif; other site 909954005336 Walker B; other site 909954005337 D-loop; other site 909954005338 H-loop/switch region; other site 909954005339 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 909954005340 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 909954005341 FtsX-like permease family; Region: FtsX; pfam02687 909954005342 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 909954005343 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 909954005344 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 909954005345 catalytic core [active] 909954005346 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 909954005347 catalytic core [active] 909954005348 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 909954005349 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 909954005350 catalytic site [active] 909954005351 hypothetical protein; Validated; Region: PRK02101 909954005352 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 909954005353 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 909954005354 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 909954005355 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 909954005356 putative active site [active] 909954005357 catalytic site [active] 909954005358 putative metal binding site [ion binding]; other site 909954005359 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 909954005360 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 909954005361 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 909954005362 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 909954005363 putative active site [active] 909954005364 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 909954005365 Integrase core domain; Region: rve; pfam00665 909954005366 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 909954005367 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 909954005368 Walker A/P-loop; other site 909954005369 ATP binding site [chemical binding]; other site 909954005370 Q-loop/lid; other site 909954005371 ABC transporter signature motif; other site 909954005372 Walker B; other site 909954005373 D-loop; other site 909954005374 H-loop/switch region; other site 909954005375 Putative exporter of polyketide antibiotics [Cell envelope biogenesis, outer membrane]; Region: TnrB3; COG3559 909954005376 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 909954005377 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 909954005378 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 909954005379 multiple promoter invertase; Provisional; Region: mpi; PRK13413 909954005380 catalytic residues [active] 909954005381 catalytic nucleophile [active] 909954005382 Presynaptic Site I dimer interface [polypeptide binding]; other site 909954005383 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 909954005384 Synaptic Flat tetramer interface [polypeptide binding]; other site 909954005385 Synaptic Site I dimer interface [polypeptide binding]; other site 909954005386 DNA binding site [nucleotide binding] 909954005387 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 909954005388 DNA-binding interface [nucleotide binding]; DNA binding site 909954005389 Helix-turn-helix domain; Region: HTH_38; pfam13936 909954005390 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 909954005391 DNA-binding interface [nucleotide binding]; DNA binding site 909954005392 Integrase core domain; Region: rve; pfam00665 909954005393 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 909954005394 nucleotide binding site/active site [active] 909954005395 HIT family signature motif; other site 909954005396 catalytic residue [active] 909954005397 Class I aldolases; Region: Aldolase_Class_I; cl17187 909954005398 drug efflux system protein MdtG; Provisional; Region: PRK09874 909954005399 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 909954005400 putative substrate translocation pore; other site 909954005401 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 909954005402 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 909954005403 catalytic triad [active] 909954005404 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 909954005405 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909954005406 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 909954005407 Walker A/P-loop; other site 909954005408 ATP binding site [chemical binding]; other site 909954005409 Q-loop/lid; other site 909954005410 ABC transporter signature motif; other site 909954005411 Walker B; other site 909954005412 D-loop; other site 909954005413 H-loop/switch region; other site 909954005414 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 909954005415 putative ADP-ribose binding site [chemical binding]; other site 909954005416 putative active site [active] 909954005417 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 909954005418 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 909954005419 active site turn [active] 909954005420 phosphorylation site [posttranslational modification] 909954005421 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 909954005422 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 909954005423 HPr interaction site; other site 909954005424 glycerol kinase (GK) interaction site [polypeptide binding]; other site 909954005425 active site 909954005426 phosphorylation site [posttranslational modification] 909954005427 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 909954005428 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 909954005429 substrate binding [chemical binding]; other site 909954005430 active site 909954005431 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 909954005432 Transcriptional regulators [Transcription]; Region: PurR; COG1609 909954005433 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 909954005434 DNA binding site [nucleotide binding] 909954005435 domain linker motif; other site 909954005436 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 909954005437 dimerization interface [polypeptide binding]; other site 909954005438 ligand binding site [chemical binding]; other site 909954005439 sodium binding site [ion binding]; other site 909954005440 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 909954005441 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 909954005442 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 909954005443 substrate binding site [chemical binding]; other site 909954005444 dimer interface [polypeptide binding]; other site 909954005445 ATP binding site [chemical binding]; other site 909954005446 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 909954005447 catalytic triad [active] 909954005448 amino acid transporter; Region: 2A0306; TIGR00909 909954005449 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 909954005450 EamA-like transporter family; Region: EamA; pfam00892 909954005451 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 909954005452 EamA-like transporter family; Region: EamA; pfam00892 909954005453 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 909954005454 dimer interface [polypeptide binding]; other site 909954005455 active site 909954005456 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 909954005457 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 909954005458 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 909954005459 catalytic triad [active] 909954005460 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 909954005461 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 909954005462 Domain of unknown function (DUF956); Region: DUF956; pfam06115 909954005463 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 909954005464 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 909954005465 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 909954005466 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 909954005467 active pocket/dimerization site; other site 909954005468 active site 909954005469 phosphorylation site [posttranslational modification] 909954005470 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 909954005471 active site 909954005472 phosphorylation site [posttranslational modification] 909954005473 amino acid transporter; Region: 2A0306; TIGR00909 909954005474 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 909954005475 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 909954005476 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 909954005477 Walker A motif; other site 909954005478 ATP binding site [chemical binding]; other site 909954005479 Walker B motif; other site 909954005480 arginine finger; other site 909954005481 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 909954005482 Walker A motif; other site 909954005483 ATP binding site [chemical binding]; other site 909954005484 Walker B motif; other site 909954005485 arginine finger; other site 909954005486 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 909954005487 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 909954005488 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 909954005489 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 909954005490 Major Facilitator Superfamily; Region: MFS_1; pfam07690 909954005491 putative substrate translocation pore; other site 909954005492 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 909954005493 Beta-lactamase; Region: Beta-lactamase; pfam00144 909954005494 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 909954005495 DltD N-terminal region; Region: DltD_N; pfam04915 909954005496 DltD central region; Region: DltD_M; pfam04918 909954005497 DltD C-terminal region; Region: DltD_C; pfam04914 909954005498 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 909954005499 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 909954005500 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 909954005501 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 909954005502 acyl-activating enzyme (AAE) consensus motif; other site 909954005503 AMP binding site [chemical binding]; other site 909954005504 FOG: CBS domain [General function prediction only]; Region: COG0517 909954005505 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 909954005506 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 909954005507 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 909954005508 Soluble P-type ATPase [General function prediction only]; Region: COG4087 909954005509 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 909954005510 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 909954005511 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 909954005512 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 909954005513 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 909954005514 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909954005515 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 909954005516 Walker A/P-loop; other site 909954005517 ATP binding site [chemical binding]; other site 909954005518 Q-loop/lid; other site 909954005519 ABC transporter signature motif; other site 909954005520 Walker B; other site 909954005521 D-loop; other site 909954005522 H-loop/switch region; other site 909954005523 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 909954005524 non-specific DNA binding site [nucleotide binding]; other site 909954005525 salt bridge; other site 909954005526 sequence-specific DNA binding site [nucleotide binding]; other site 909954005527 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 909954005528 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 909954005529 putative substrate binding pocket [chemical binding]; other site 909954005530 AC domain interface; other site 909954005531 catalytic triad [active] 909954005532 AB domain interface; other site 909954005533 interchain disulfide; other site 909954005534 Predicted membrane protein [Function unknown]; Region: COG3817 909954005535 Protein of unknown function (DUF979); Region: DUF979; pfam06166 909954005536 Protein of unknown function (DUF969); Region: DUF969; pfam06149 909954005537 Protein of unknown function (DUF805); Region: DUF805; pfam05656 909954005538 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 909954005539 PTS system sugar-specific permease component; Region: EIIC-GAT; pfam03611 909954005540 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 909954005541 CAAX protease self-immunity; Region: Abi; pfam02517 909954005542 Uncharacterized conserved protein [Function unknown]; Region: COG1434 909954005543 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 909954005544 putative active site [active] 909954005545 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 909954005546 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 909954005547 Walker A/P-loop; other site 909954005548 ATP binding site [chemical binding]; other site 909954005549 Q-loop/lid; other site 909954005550 ABC transporter signature motif; other site 909954005551 Walker B; other site 909954005552 D-loop; other site 909954005553 H-loop/switch region; other site 909954005554 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 909954005555 FtsX-like permease family; Region: FtsX; pfam02687 909954005556 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 909954005557 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 909954005558 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 909954005559 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 909954005560 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909954005561 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954005562 Walker A/P-loop; other site 909954005563 ATP binding site [chemical binding]; other site 909954005564 Q-loop/lid; other site 909954005565 ABC transporter signature motif; other site 909954005566 Walker B; other site 909954005567 D-loop; other site 909954005568 H-loop/switch region; other site 909954005569 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 909954005570 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 909954005571 Walker A/P-loop; other site 909954005572 ATP binding site [chemical binding]; other site 909954005573 Q-loop/lid; other site 909954005574 ABC transporter signature motif; other site 909954005575 Walker B; other site 909954005576 D-loop; other site 909954005577 H-loop/switch region; other site 909954005578 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 909954005579 UbiA prenyltransferase family; Region: UbiA; pfam01040 909954005580 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 909954005581 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 909954005582 substrate binding pocket [chemical binding]; other site 909954005583 membrane-bound complex binding site; other site 909954005584 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 909954005585 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 909954005586 ligand binding site [chemical binding]; other site 909954005587 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 909954005588 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 909954005589 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 909954005590 putative active site [active] 909954005591 Uncharacterized conserved protein [Function unknown]; Region: COG3589 909954005592 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 909954005593 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 909954005594 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 909954005595 putative active site [active] 909954005596 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 909954005597 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 909954005598 active site turn [active] 909954005599 phosphorylation site [posttranslational modification] 909954005600 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 909954005601 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 909954005602 HPr interaction site; other site 909954005603 glycerol kinase (GK) interaction site [polypeptide binding]; other site 909954005604 active site 909954005605 phosphorylation site [posttranslational modification] 909954005606 hypothetical protein; Provisional; Region: PRK10621 909954005607 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 909954005608 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 909954005609 active site 909954005610 intersubunit interface [polypeptide binding]; other site 909954005611 Zn2+ binding site [ion binding]; other site 909954005612 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 909954005613 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 909954005614 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 909954005615 active site 909954005616 P-loop; other site 909954005617 phosphorylation site [posttranslational modification] 909954005618 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 909954005619 active site 909954005620 phosphorylation site [posttranslational modification] 909954005621 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 909954005622 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 909954005623 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 909954005624 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 909954005625 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 909954005626 putative substrate binding site [chemical binding]; other site 909954005627 putative ATP binding site [chemical binding]; other site 909954005628 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 909954005629 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 909954005630 active site 909954005631 catalytic tetrad [active] 909954005632 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 909954005633 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 909954005634 active site 909954005635 trimer interface [polypeptide binding]; other site 909954005636 allosteric site; other site 909954005637 active site lid [active] 909954005638 hexamer (dimer of trimers) interface [polypeptide binding]; other site 909954005639 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 909954005640 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 909954005641 Substrate-binding site [chemical binding]; other site 909954005642 Substrate specificity [chemical binding]; other site 909954005643 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 909954005644 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 909954005645 Substrate-binding site [chemical binding]; other site 909954005646 Substrate specificity [chemical binding]; other site 909954005647 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 909954005648 teramer interface [polypeptide binding]; other site 909954005649 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 909954005650 active site 909954005651 FMN binding site [chemical binding]; other site 909954005652 catalytic residues [active] 909954005653 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 909954005654 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 909954005655 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 909954005656 DNA binding residues [nucleotide binding] 909954005657 dimer interface [polypeptide binding]; other site 909954005658 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 909954005659 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 909954005660 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 909954005661 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 909954005662 NAD(P) binding site [chemical binding]; other site 909954005663 active site 909954005664 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 909954005665 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 909954005666 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 909954005667 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 909954005668 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 909954005669 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 909954005670 non-specific DNA binding site [nucleotide binding]; other site 909954005671 salt bridge; other site 909954005672 sequence-specific DNA binding site [nucleotide binding]; other site 909954005673 Protein of unknown function (DUF3955); Region: DUF3955; pfam13127 909954005674 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 909954005675 active site 909954005676 catalytic residues [active] 909954005677 metal binding site [ion binding]; metal-binding site 909954005678 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 909954005679 Penicillinase repressor; Region: Pencillinase_R; pfam03965 909954005680 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 909954005681 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 909954005682 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 909954005683 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 909954005684 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 909954005685 motif II; other site 909954005686 Amino acid permease; Region: AA_permease_2; pfam13520 909954005687 putative ornithine decarboxylase; Region: lacto_ODC_hypo; TIGR04318 909954005688 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 909954005689 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 909954005690 catalytic residue [active] 909954005691 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 909954005692 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 909954005693 Aluminium resistance protein; Region: Alum_res; pfam06838 909954005694 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 909954005695 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 909954005696 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 909954005697 Coenzyme A binding pocket [chemical binding]; other site 909954005698 benzoate transport; Region: 2A0115; TIGR00895 909954005699 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 909954005700 MutS domain III; Region: MutS_III; pfam05192 909954005701 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909954005702 Walker A/P-loop; other site 909954005703 ATP binding site [chemical binding]; other site 909954005704 Q-loop/lid; other site 909954005705 ABC transporter signature motif; other site 909954005706 Walker B; other site 909954005707 D-loop; other site 909954005708 H-loop/switch region; other site 909954005709 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 909954005710 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 909954005711 Cl- selectivity filter; other site 909954005712 Cl- binding residues [ion binding]; other site 909954005713 pore gating glutamate residue; other site 909954005714 dimer interface [polypeptide binding]; other site 909954005715 H+/Cl- coupling transport residue; other site 909954005716 TrkA-C domain; Region: TrkA_C; pfam02080 909954005717 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 909954005718 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 909954005719 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 909954005720 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 909954005721 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 909954005722 PYR/PP interface [polypeptide binding]; other site 909954005723 dimer interface [polypeptide binding]; other site 909954005724 tetramer interface [polypeptide binding]; other site 909954005725 TPP binding site [chemical binding]; other site 909954005726 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 909954005727 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 909954005728 TPP-binding site [chemical binding]; other site 909954005729 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 909954005730 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 909954005731 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 909954005732 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 909954005733 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 909954005734 trmE is a tRNA modification GTPase; Region: trmE; cd04164 909954005735 G1 box; other site 909954005736 GTP/Mg2+ binding site [chemical binding]; other site 909954005737 Switch I region; other site 909954005738 G2 box; other site 909954005739 Switch II region; other site 909954005740 G3 box; other site 909954005741 G4 box; other site 909954005742 G5 box; other site 909954005743 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 909954005744 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 909954005745 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 909954005746 ribonuclease P; Reviewed; Region: rnpA; PRK00499 909954005747 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399