-- dump date 20140619_140251 -- class Genbank::misc_feature -- table misc_feature_note -- id note 657316000001 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657316000002 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 657316000003 ATP binding site [chemical binding]; other site 657316000004 Mg2+ binding site [ion binding]; other site 657316000005 G-X-G motif; other site 657316000006 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657316000007 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 657316000008 Walker A/P-loop; other site 657316000009 ATP binding site [chemical binding]; other site 657316000010 Q-loop/lid; other site 657316000011 ABC transporter signature motif; other site 657316000012 Walker B; other site 657316000013 D-loop; other site 657316000014 H-loop/switch region; other site 657316000015 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 657316000016 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 657316000017 dimer interface [polypeptide binding]; other site 657316000018 conserved gate region; other site 657316000019 putative PBP binding loops; other site 657316000020 ABC-ATPase subunit interface; other site 657316000021 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 657316000022 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 657316000023 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 657316000024 putative deacylase active site [active] 657316000025 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 657316000026 HTH domain; Region: HTH_11; pfam08279 657316000027 3H domain; Region: 3H; pfam02829 657316000028 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 657316000029 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 657316000030 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 657316000031 active site 657316000032 phosphorylation site [posttranslational modification] 657316000033 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 657316000034 active pocket/dimerization site; other site 657316000035 active site 657316000036 phosphorylation site [posttranslational modification] 657316000037 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657316000038 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 657316000039 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 657316000040 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 657316000041 DNA binding residues [nucleotide binding] 657316000042 dimerization interface [polypeptide binding]; other site 657316000043 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 657316000044 Histidine kinase; Region: HisKA_3; pfam07730 657316000045 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 657316000046 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 657316000047 ATP binding site [chemical binding]; other site 657316000048 Mg2+ binding site [ion binding]; other site 657316000049 G-X-G motif; other site 657316000050 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 657316000051 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 657316000052 ligand binding site [chemical binding]; other site 657316000053 Uncharacterized protein family (UPF0081); Region: UPF0081; cl17278 657316000054 Predicted permeases [General function prediction only]; Region: COG0795 657316000055 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 657316000056 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 657316000057 OstA-like protein; Region: OstA; cl00844 657316000058 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 657316000059 putative acyl-acceptor binding pocket; other site 657316000060 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 657316000061 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 657316000062 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 657316000063 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 657316000064 putative active site [active] 657316000065 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 657316000066 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 657316000067 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 657316000068 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 657316000069 active site 657316000070 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657316000071 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 657316000072 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 657316000073 Walker A/P-loop; other site 657316000074 ATP binding site [chemical binding]; other site 657316000075 Q-loop/lid; other site 657316000076 ABC transporter signature motif; other site 657316000077 Walker B; other site 657316000078 D-loop; other site 657316000079 H-loop/switch region; other site 657316000080 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657316000081 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 657316000082 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 657316000083 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 657316000084 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 657316000085 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 657316000086 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 657316000087 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 657316000088 active site 657316000089 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 657316000090 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 657316000091 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 657316000092 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 657316000093 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 657316000094 putative acyl-acceptor binding pocket; other site 657316000095 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 657316000096 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 657316000097 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 657316000098 periplasmic chaperone; Provisional; Region: PRK10780 657316000099 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 657316000100 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 657316000101 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 657316000102 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 657316000103 Surface antigen; Region: Bac_surface_Ag; pfam01103 657316000104 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 657316000105 Family of unknown function (DUF490); Region: DUF490; pfam04357 657316000106 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 657316000107 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 657316000108 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 657316000109 mce related protein; Region: MCE; pfam02470 657316000110 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 657316000111 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 657316000112 Walker A/P-loop; other site 657316000113 ATP binding site [chemical binding]; other site 657316000114 Q-loop/lid; other site 657316000115 ABC transporter signature motif; other site 657316000116 Walker B; other site 657316000117 D-loop; other site 657316000118 H-loop/switch region; other site 657316000119 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 657316000120 Permease; Region: Permease; pfam02405 657316000121 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 657316000122 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 657316000123 Predicted periplasmic protein [Function unknown]; Region: COG3698 657316000124 rod shape-determining protein Mbl; Provisional; Region: PRK13928 657316000125 MreB and similar proteins; Region: MreB_like; cd10225 657316000126 nucleotide binding site [chemical binding]; other site 657316000127 Mg binding site [ion binding]; other site 657316000128 putative protofilament interaction site [polypeptide binding]; other site 657316000129 RodZ interaction site [polypeptide binding]; other site 657316000130 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 657316000131 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 657316000132 NAD(P) binding site [chemical binding]; other site 657316000133 LDH/MDH dimer interface [polypeptide binding]; other site 657316000134 substrate binding site [chemical binding]; other site 657316000135 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 657316000136 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 657316000137 active site 657316000138 trimer interface [polypeptide binding]; other site 657316000139 allosteric site; other site 657316000140 active site lid [active] 657316000141 hexamer (dimer of trimers) interface [polypeptide binding]; other site 657316000142 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 657316000143 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 657316000144 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 657316000145 putative active site [active] 657316000146 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 657316000147 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 657316000148 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 657316000149 nucleotide binding site [chemical binding]; other site 657316000150 cyclically-permuted mutarotase family protein; Region: mutarot_permut; TIGR03548 657316000151 Kelch motif; Region: Kelch_1; pfam01344 657316000152 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 657316000153 Na binding site [ion binding]; other site 657316000154 Class I aldolases; Region: Aldolase_Class_I; cl17187 657316000155 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 657316000156 EamA-like transporter family; Region: EamA; pfam00892 657316000157 EamA-like transporter family; Region: EamA; pfam00892 657316000158 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 657316000159 active site 657316000160 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 657316000161 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 657316000162 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 657316000163 putative L-serine binding site [chemical binding]; other site 657316000164 Haemolysin-III related; Region: HlyIII; cl03831 657316000165 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 657316000166 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 657316000167 active site 657316000168 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 657316000169 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 657316000170 dimer interface [polypeptide binding]; other site 657316000171 conserved gate region; other site 657316000172 putative PBP binding loops; other site 657316000173 ABC-ATPase subunit interface; other site 657316000174 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 657316000175 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 657316000176 dimer interface [polypeptide binding]; other site 657316000177 conserved gate region; other site 657316000178 putative PBP binding loops; other site 657316000179 ABC-ATPase subunit interface; other site 657316000180 PBP superfamily domain; Region: PBP_like_2; cl17296 657316000181 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 657316000182 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 657316000183 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 657316000184 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 657316000185 inhibitor-cofactor binding pocket; inhibition site 657316000186 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316000187 catalytic residue [active] 657316000188 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 657316000189 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 657316000190 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 657316000191 dimer interface [polypeptide binding]; other site 657316000192 active site 657316000193 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 657316000194 phosphomannomutase CpsG; Provisional; Region: PRK15414 657316000195 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 657316000196 active site 657316000197 substrate binding site [chemical binding]; other site 657316000198 metal binding site [ion binding]; metal-binding site 657316000199 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657316000200 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657316000201 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657316000202 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657316000203 Uncharacterized conserved protein [Function unknown]; Region: COG1434 657316000204 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 657316000205 putative active site [active] 657316000206 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 657316000207 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 657316000208 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 657316000209 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 657316000210 TSCPD domain; Region: TSCPD; cl14834 657316000211 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 657316000212 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 657316000213 Aspartase; Region: Aspartase; cd01357 657316000214 active sites [active] 657316000215 tetramer interface [polypeptide binding]; other site 657316000216 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 657316000217 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 657316000218 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 657316000219 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 657316000220 motif I; other site 657316000221 active site 657316000222 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 657316000223 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 657316000224 prephenate dehydrogenase; Validated; Region: PRK06545 657316000225 prephenate dehydrogenase; Validated; Region: PRK08507 657316000226 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 657316000227 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657316000228 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657316000229 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657316000230 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 657316000231 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 657316000232 galactoside permease; Reviewed; Region: lacY; PRK09528 657316000233 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 657316000234 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 657316000235 Protein export membrane protein; Region: SecD_SecF; pfam02355 657316000236 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 657316000237 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 657316000238 Preprotein translocase subunit; Region: YajC; cl00806 657316000239 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 657316000240 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 657316000241 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 657316000242 Stage II sporulation protein; Region: SpoIID; pfam08486 657316000243 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 657316000244 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 657316000245 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657316000246 Coenzyme A binding pocket [chemical binding]; other site 657316000247 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 657316000248 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 657316000249 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 657316000250 motif II; other site 657316000251 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 657316000252 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 657316000253 NAD(P) binding site [chemical binding]; other site 657316000254 LDH/MDH dimer interface [polypeptide binding]; other site 657316000255 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 657316000256 heat shock protein 90; Provisional; Region: PRK05218 657316000257 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 657316000258 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 657316000259 active site 657316000260 motif I; other site 657316000261 motif II; other site 657316000262 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 657316000263 O-Antigen ligase; Region: Wzy_C; pfam04932 657316000264 Bacterial protein of unknown function (HtrL_YibB); Region: HtrL_YibB; cl08171 657316000265 Bacterial protein of unknown function (HtrL_YibB); Region: HtrL_YibB; cl08171 657316000266 Bacterial protein of unknown function (HtrL_YibB); Region: HtrL_YibB; cl08171 657316000267 Bacterial protein of unknown function (HtrL_YibB); Region: HtrL_YibB; cl08171 657316000268 Bacterial protein of unknown function (HtrL_YibB); Region: HtrL_YibB; cl08171 657316000269 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 657316000270 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 657316000271 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657316000272 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 657316000273 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 657316000274 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 657316000275 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 657316000276 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 657316000277 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 657316000278 putative active site [active] 657316000279 putative metal binding site [ion binding]; other site 657316000280 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 657316000281 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 657316000282 putative active site [active] 657316000283 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657316000284 active site 657316000285 HIGH motif; other site 657316000286 nucleotide binding site [chemical binding]; other site 657316000287 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 657316000288 ATP binding site [chemical binding]; other site 657316000289 substrate binding site [chemical binding]; other site 657316000290 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 657316000291 4-alpha-glucanotransferase; Provisional; Region: PRK14508 657316000292 glycogen branching enzyme; Provisional; Region: PRK05402 657316000293 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 657316000294 active site 657316000295 catalytic site [active] 657316000296 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 657316000297 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 657316000298 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 657316000299 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 657316000300 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 657316000301 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 657316000302 ligand binding site; other site 657316000303 oligomer interface; other site 657316000304 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 657316000305 dimer interface [polypeptide binding]; other site 657316000306 N-terminal domain interface [polypeptide binding]; other site 657316000307 sulfate 1 binding site; other site 657316000308 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 657316000309 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 657316000310 ligand binding site; other site 657316000311 oligomer interface; other site 657316000312 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 657316000313 dimer interface [polypeptide binding]; other site 657316000314 N-terminal domain interface [polypeptide binding]; other site 657316000315 sulfate 1 binding site; other site 657316000316 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 657316000317 putative active site [active] 657316000318 putative metal binding residues [ion binding]; other site 657316000319 signature motif; other site 657316000320 putative triphosphate binding site [ion binding]; other site 657316000321 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 657316000322 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 657316000323 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 657316000324 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 657316000325 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 657316000326 active site 657316000327 tetramer interface; other site 657316000328 YvrJ protein family; Region: YvrJ; pfam12841 657316000329 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 657316000330 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 657316000331 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 657316000332 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 657316000333 active site 657316000334 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 657316000335 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 657316000336 NAD binding site [chemical binding]; other site 657316000337 substrate binding site [chemical binding]; other site 657316000338 homodimer interface [polypeptide binding]; other site 657316000339 active site 657316000340 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; cl00470 657316000341 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657316000342 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 657316000343 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 657316000344 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 657316000345 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 657316000346 putative CoA binding site [chemical binding]; other site 657316000347 putative trimer interface [polypeptide binding]; other site 657316000348 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 657316000349 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 657316000350 active site 657316000351 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 657316000352 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 657316000353 active site 657316000354 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657316000355 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 657316000356 putative ADP-binding pocket [chemical binding]; other site 657316000357 Bacterial sugar transferase; Region: Bac_transf; pfam02397 657316000358 Chain length determinant protein; Region: Wzz; pfam02706 657316000359 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 657316000360 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 657316000361 polysaccharide export protein Wza; Provisional; Region: PRK15078 657316000362 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 657316000363 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 657316000364 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 657316000365 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 657316000366 metal binding site [ion binding]; metal-binding site 657316000367 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 657316000368 Nitrogen regulatory protein P-II; Region: P-II; smart00938 657316000369 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 657316000370 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 657316000371 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 657316000372 Na binding site [ion binding]; other site 657316000373 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 657316000374 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 657316000375 transmembrane helices; other site 657316000376 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 657316000377 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657316000378 active site 657316000379 HIGH motif; other site 657316000380 nucleotide binding site [chemical binding]; other site 657316000381 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 657316000382 KMSKS motif; other site 657316000383 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 657316000384 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657316000385 Zn2+ binding site [ion binding]; other site 657316000386 Mg2+ binding site [ion binding]; other site 657316000387 ferric uptake regulator; Provisional; Region: fur; PRK09462 657316000388 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 657316000389 metal binding site 2 [ion binding]; metal-binding site 657316000390 putative DNA binding helix; other site 657316000391 metal binding site 1 [ion binding]; metal-binding site 657316000392 dimer interface [polypeptide binding]; other site 657316000393 structural Zn2+ binding site [ion binding]; other site 657316000394 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 657316000395 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 657316000396 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 657316000397 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 657316000398 protein binding site [polypeptide binding]; other site 657316000399 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 657316000400 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 657316000401 Na binding site [ion binding]; other site 657316000402 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 657316000403 nucleoside/Zn binding site; other site 657316000404 dimer interface [polypeptide binding]; other site 657316000405 catalytic motif [active] 657316000406 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 657316000407 Ligand Binding Site [chemical binding]; other site 657316000408 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 657316000409 Ligand Binding Site [chemical binding]; other site 657316000410 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 657316000411 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 657316000412 transmembrane helices; other site 657316000413 radical SAM enzyme, TIGR04100 family; Region: rSAM_pair_X 657316000414 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 657316000415 6-phosphogluconate dehydratase; Region: edd; TIGR01196 657316000416 2-isopropylmalate synthase; Validated; Region: PRK03739 657316000417 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 657316000418 active site 657316000419 catalytic residues [active] 657316000420 metal binding site [ion binding]; metal-binding site 657316000421 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 657316000422 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 657316000423 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 657316000424 substrate binding site [chemical binding]; other site 657316000425 ligand binding site [chemical binding]; other site 657316000426 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 657316000427 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 657316000428 substrate binding site [chemical binding]; other site 657316000429 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657316000430 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657316000431 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657316000432 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657316000433 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 657316000434 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657316000435 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657316000436 DNA binding site [nucleotide binding] 657316000437 domain linker motif; other site 657316000438 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 657316000439 dimerization interface [polypeptide binding]; other site 657316000440 ligand binding site [chemical binding]; other site 657316000441 Transposase IS200 like; Region: Y1_Tnp; pfam01797 657316000442 Probable transposase; Region: OrfB_IS605; pfam01385 657316000443 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 657316000444 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 657316000445 motif II; other site 657316000446 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 657316000447 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 657316000448 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 657316000449 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 657316000450 dimerization domain swap beta strand [polypeptide binding]; other site 657316000451 regulatory protein interface [polypeptide binding]; other site 657316000452 active site 657316000453 regulatory phosphorylation site [posttranslational modification]; other site 657316000454 S-layer homology domain; Region: SLH; pfam00395 657316000455 S-layer homology domain; Region: SLH; pfam00395 657316000456 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 657316000457 ATP cone domain; Region: ATP-cone; pfam03477 657316000458 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 657316000459 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 657316000460 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 657316000461 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK14704 657316000462 4Fe-4S single cluster domain; Region: Fer4_14; pfam13394 657316000463 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 657316000464 FeS/SAM binding site; other site 657316000465 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 657316000466 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 657316000467 intersubunit interface [polypeptide binding]; other site 657316000468 active site 657316000469 Zn2+ binding site [ion binding]; other site 657316000470 Protein of unknown function (DUF554); Region: DUF554; pfam04474 657316000471 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 657316000472 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 657316000473 Ca binding site [ion binding]; other site 657316000474 active site 657316000475 catalytic site [active] 657316000476 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 657316000477 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 657316000478 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 657316000479 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657316000480 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657316000481 active site 657316000482 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 657316000483 MFS/sugar transport protein; Region: MFS_2; pfam13347 657316000484 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 657316000485 putative substrate translocation pore; other site 657316000486 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 657316000487 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 657316000488 N- and C-terminal domain interface [polypeptide binding]; other site 657316000489 D-xylulose kinase; Region: XylB; TIGR01312 657316000490 active site 657316000491 MgATP binding site [chemical binding]; other site 657316000492 catalytic site [active] 657316000493 metal binding site [ion binding]; metal-binding site 657316000494 xylulose binding site [chemical binding]; other site 657316000495 homodimer interface [polypeptide binding]; other site 657316000496 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 657316000497 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 657316000498 hexamer (dimer of trimers) interface [polypeptide binding]; other site 657316000499 substrate binding site [chemical binding]; other site 657316000500 trimer interface [polypeptide binding]; other site 657316000501 Mn binding site [ion binding]; other site 657316000502 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 657316000503 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657316000504 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 657316000505 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657316000506 DNA-binding site [nucleotide binding]; DNA binding site 657316000507 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 657316000508 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 657316000509 active site 657316000510 multimer interface [polypeptide binding]; other site 657316000511 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 657316000512 predicted active site [active] 657316000513 catalytic triad [active] 657316000514 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 657316000515 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 657316000516 Walker A motif; other site 657316000517 ATP binding site [chemical binding]; other site 657316000518 Walker B motif; other site 657316000519 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 657316000520 active site 657316000521 substrate binding site [chemical binding]; other site 657316000522 metal binding site [ion binding]; metal-binding site 657316000523 ATP-dependent DNA helicase, RecQ family; Region: recQ_fam; TIGR00614 657316000524 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 657316000525 ATP binding site [chemical binding]; other site 657316000526 putative Mg++ binding site [ion binding]; other site 657316000527 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 657316000528 nucleotide binding region [chemical binding]; other site 657316000529 ATP-binding site [chemical binding]; other site 657316000530 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 657316000531 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 657316000532 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 657316000533 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 657316000534 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 657316000535 HPP family; Region: HPP; pfam04982 657316000536 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 657316000537 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 657316000538 LysE type translocator; Region: LysE; cl00565 657316000539 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 657316000540 FAD binding domain; Region: FAD_binding_4; pfam01565 657316000541 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 657316000542 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 657316000543 RNA binding site [nucleotide binding]; other site 657316000544 domain interface; other site 657316000545 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 657316000546 RNase E interface [polypeptide binding]; other site 657316000547 RNase PH [Translation, ribosomal structure and biogenesis]; Region: Rph; COG0689 657316000548 trimer interface [polypeptide binding]; other site 657316000549 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 657316000550 archaeal exosome-like complex exonuclease 1; Region: ECX1; TIGR02065 657316000551 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 657316000552 RNase E interface [polypeptide binding]; other site 657316000553 trimer interface [polypeptide binding]; other site 657316000554 active site 657316000555 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 657316000556 putative nucleic acid binding region [nucleotide binding]; other site 657316000557 G-X-X-G motif; other site 657316000558 S15/NS1/EPRS_RNA-binding domain. This short domain consists of a helix-turn-helix structure, which can bind to several types of RNA. It is found in the ribosomal protein S15, the influenza A viral nonstructural protein (NSA) and in several eukaryotic...; Region: S15_NS1_EPRS_RNA-bind; cl00349 657316000559 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 657316000560 16S/18S rRNA binding site [nucleotide binding]; other site 657316000561 S13e-L30e interaction site [polypeptide binding]; other site 657316000562 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 657316000563 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 657316000564 motif II; other site 657316000565 benzoate transport; Region: 2A0115; TIGR00895 657316000566 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 657316000567 putative substrate translocation pore; other site 657316000568 Tetratricopeptide repeat; Region: TPR_12; pfam13424 657316000569 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 657316000570 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 657316000571 YibE/F-like protein; Region: YibE_F; cl02259 657316000572 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657316000573 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657316000574 active site 657316000575 metal binding site [ion binding]; metal-binding site 657316000576 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657316000577 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657316000578 active site 657316000579 metal binding site [ion binding]; metal-binding site 657316000580 S-layer homology domain; Region: SLH; pfam00395 657316000581 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 657316000582 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657316000583 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 657316000584 intermolecular recognition site; other site 657316000585 active site 657316000586 dimerization interface [polypeptide binding]; other site 657316000587 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 657316000588 DNA binding site [nucleotide binding] 657316000589 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 657316000590 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 657316000591 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 657316000592 inhibitor-cofactor binding pocket; inhibition site 657316000593 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316000594 catalytic residue [active] 657316000595 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 657316000596 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 657316000597 Ligand binding site; other site 657316000598 Putative Catalytic site; other site 657316000599 DXD motif; other site 657316000600 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 657316000601 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 657316000602 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657316000603 NAD(P) binding site [chemical binding]; other site 657316000604 active site 657316000605 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 657316000606 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 657316000607 putative active site [active] 657316000608 putative catalytic site [active] 657316000609 putative Zn binding site [ion binding]; other site 657316000610 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 657316000611 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 657316000612 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 657316000613 active site 657316000614 motif I; other site 657316000615 motif II; other site 657316000616 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 657316000617 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 657316000618 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316000619 homodimer interface [polypeptide binding]; other site 657316000620 catalytic residue [active] 657316000621 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 657316000622 cobalt transport protein CbiM; Provisional; Region: PRK07331 657316000623 cobalt transport protein CbiM; Provisional; Region: PRK11909 657316000624 PDGLE domain; Region: PDGLE; pfam13190 657316000625 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 657316000626 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 657316000627 Walker A/P-loop; other site 657316000628 ATP binding site [chemical binding]; other site 657316000629 Q-loop/lid; other site 657316000630 ABC transporter signature motif; other site 657316000631 Walker B; other site 657316000632 D-loop; other site 657316000633 H-loop/switch region; other site 657316000634 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 657316000635 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 657316000636 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 657316000637 FeS/SAM binding site; other site 657316000638 Chromate transporter; Region: Chromate_transp; pfam02417 657316000639 Chromate transporter; Region: Chromate_transp; pfam02417 657316000640 L-asparaginase II; Region: Asparaginase_II; cl01842 657316000641 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 657316000642 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 657316000643 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 657316000644 homodimer interface [polypeptide binding]; other site 657316000645 Walker A motif; other site 657316000646 ATP binding site [chemical binding]; other site 657316000647 hydroxycobalamin binding site [chemical binding]; other site 657316000648 Walker B motif; other site 657316000649 ABC-2 type transporter; Region: ABC2_membrane; cl17235 657316000650 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 657316000651 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 657316000652 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657316000653 Walker A/P-loop; other site 657316000654 ATP binding site [chemical binding]; other site 657316000655 Q-loop/lid; other site 657316000656 ABC transporter signature motif; other site 657316000657 Walker B; other site 657316000658 D-loop; other site 657316000659 H-loop/switch region; other site 657316000660 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 657316000661 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 657316000662 Walker A/P-loop; other site 657316000663 ATP binding site [chemical binding]; other site 657316000664 Q-loop/lid; other site 657316000665 ABC transporter signature motif; other site 657316000666 Walker B; other site 657316000667 D-loop; other site 657316000668 H-loop/switch region; other site 657316000669 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 657316000670 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 657316000671 ABC-ATPase subunit interface; other site 657316000672 dimer interface [polypeptide binding]; other site 657316000673 putative PBP binding regions; other site 657316000674 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 657316000675 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 657316000676 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 657316000677 active site 657316000678 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 657316000679 active site 657316000680 N-terminal domain interface [polypeptide binding]; other site 657316000681 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 657316000682 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 657316000683 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 657316000684 Predicted metal-binding protein (DUF2284); Region: DUF2284; cl02248 657316000685 L-arabinose isomerase; Provisional; Region: PRK02929 657316000686 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 657316000687 hexamer (dimer of trimers) interface [polypeptide binding]; other site 657316000688 trimer interface [polypeptide binding]; other site 657316000689 substrate binding site [chemical binding]; other site 657316000690 Mn binding site [ion binding]; other site 657316000691 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 657316000692 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 657316000693 putative substrate translocation pore; other site 657316000694 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 657316000695 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 657316000696 Protein of unknown function (DUF554); Region: DUF554; pfam04474 657316000697 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 657316000698 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657316000699 DNA-binding site [nucleotide binding]; DNA binding site 657316000700 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657316000701 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 657316000702 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 657316000703 active pocket/dimerization site; other site 657316000704 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 657316000705 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 657316000706 TM-ABC transporter signature motif; other site 657316000707 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 657316000708 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 657316000709 TM-ABC transporter signature motif; other site 657316000710 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 657316000711 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 657316000712 Walker A/P-loop; other site 657316000713 ATP binding site [chemical binding]; other site 657316000714 Q-loop/lid; other site 657316000715 ABC transporter signature motif; other site 657316000716 Walker B; other site 657316000717 D-loop; other site 657316000718 H-loop/switch region; other site 657316000719 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 657316000720 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 657316000721 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 657316000722 putative ligand binding site [chemical binding]; other site 657316000723 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 657316000724 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 657316000725 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 657316000726 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 657316000727 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 657316000728 nucleotide binding site [chemical binding]; other site 657316000729 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 657316000730 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 657316000731 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 657316000732 putative active site [active] 657316000733 Uncharacterized conserved protein [Function unknown]; Region: COG1284 657316000734 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657316000735 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 657316000736 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 657316000737 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 657316000738 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 657316000739 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657316000740 active site 657316000741 Transcriptional regulators [Transcription]; Region: FadR; COG2186 657316000742 FCD domain; Region: FCD; pfam07729 657316000743 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 657316000744 Transcriptional regulators [Transcription]; Region: GntR; COG1802 657316000745 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657316000746 DNA-binding site [nucleotide binding]; DNA binding site 657316000747 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 657316000748 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 657316000749 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 657316000750 Uncharacterized family 1; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_1; cd10158 657316000751 putative homodimer interface [polypeptide binding]; other site 657316000752 putative homotetramer interface [polypeptide binding]; other site 657316000753 putative metal binding site [ion binding]; other site 657316000754 putative homodimer-homodimer interface [polypeptide binding]; other site 657316000755 putative allosteric switch controlling residues; other site 657316000756 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 657316000757 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 657316000758 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 657316000759 Cl binding site [ion binding]; other site 657316000760 oligomer interface [polypeptide binding]; other site 657316000761 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657316000762 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 657316000763 cation binding site [ion binding]; other site 657316000764 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 657316000765 active site 657316000766 homodimer interface [polypeptide binding]; other site 657316000767 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 657316000768 active site 657316000769 catalytic triad [active] 657316000770 oxyanion hole [active] 657316000771 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 657316000772 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 657316000773 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 657316000774 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 657316000775 hexokinase; Provisional; Region: PTZ00107 657316000776 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 657316000777 nucleotide binding site [chemical binding]; other site 657316000778 Hexokinase; Region: Hexokinase_2; pfam03727 657316000779 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 657316000780 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 657316000781 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 657316000782 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 657316000783 sequence-specific DNA binding site [nucleotide binding]; other site 657316000784 salt bridge; other site 657316000785 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 657316000786 Catalytic site [active] 657316000787 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 657316000788 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 657316000789 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 657316000790 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 657316000791 Response regulator receiver domain; Region: Response_reg; pfam00072 657316000792 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 657316000793 active site 657316000794 phosphorylation site [posttranslational modification] 657316000795 intermolecular recognition site; other site 657316000796 dimerization interface [polypeptide binding]; other site 657316000797 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 657316000798 DNA binding site [nucleotide binding] 657316000799 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657316000800 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 657316000801 dimerization interface [polypeptide binding]; other site 657316000802 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 657316000803 dimer interface [polypeptide binding]; other site 657316000804 phosphorylation site [posttranslational modification] 657316000805 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 657316000806 ATP binding site [chemical binding]; other site 657316000807 Mg2+ binding site [ion binding]; other site 657316000808 G-X-G motif; other site 657316000809 seryl-tRNA synthetase; Provisional; Region: PRK05431 657316000810 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 657316000811 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 657316000812 dimer interface [polypeptide binding]; other site 657316000813 active site 657316000814 motif 1; other site 657316000815 motif 2; other site 657316000816 motif 3; other site 657316000817 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 657316000818 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 657316000819 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 657316000820 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 657316000821 homotrimer interaction site [polypeptide binding]; other site 657316000822 putative active site [active] 657316000823 Low molecular weight phosphatase family; Region: LMWPc; cd00115 657316000824 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 657316000825 active site 657316000826 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 657316000827 active site 657316000828 NTP binding site [chemical binding]; other site 657316000829 metal binding triad [ion binding]; metal-binding site 657316000830 Inner membrane protein CreD; Region: CreD; cl01844 657316000831 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 657316000832 AAA domain; Region: AAA_21; pfam13304 657316000833 AAA domain; Region: AAA_21; pfam13304 657316000834 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_b3; cd09205 657316000835 PLD-like domain; Region: PLDc_2; pfam13091 657316000836 putative homodimer interface [polypeptide binding]; other site 657316000837 putative active site [active] 657316000838 catalytic site [active] 657316000839 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 657316000840 ATP binding site [chemical binding]; other site 657316000841 putative Mg++ binding site [ion binding]; other site 657316000842 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657316000843 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 657316000844 active site 657316000845 phosphorylation site [posttranslational modification] 657316000846 intermolecular recognition site; other site 657316000847 dimerization interface [polypeptide binding]; other site 657316000848 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 657316000849 DNA binding site [nucleotide binding] 657316000850 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 657316000851 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 657316000852 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 657316000853 Ligand Binding Site [chemical binding]; other site 657316000854 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 657316000855 K+-transporting ATPase, c chain; Region: KdpC; cl00944 657316000856 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 657316000857 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657316000858 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 657316000859 benzoate transport; Region: 2A0115; TIGR00895 657316000860 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 657316000861 putative substrate translocation pore; other site 657316000862 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 657316000863 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 657316000864 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 657316000865 dimerization interface [polypeptide binding]; other site 657316000866 active site 657316000867 L-aspartate oxidase; Provisional; Region: PRK06175 657316000868 FAD binding domain; Region: FAD_binding_2; pfam00890 657316000869 Quinolinate synthetase A protein; Region: NadA; pfam02445 657316000870 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 657316000871 Part of AAA domain; Region: AAA_19; pfam13245 657316000872 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 657316000873 Family description; Region: UvrD_C_2; pfam13538 657316000874 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 657316000875 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 657316000876 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 657316000877 active site 657316000878 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 657316000879 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 657316000880 ligand binding site [chemical binding]; other site 657316000881 active site 657316000882 UGI interface [polypeptide binding]; other site 657316000883 catalytic site [active] 657316000884 Protein of unknown function (DUF454); Region: DUF454; cl01063 657316000885 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 657316000886 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657316000887 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 657316000888 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657316000889 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 657316000890 dimer interface [polypeptide binding]; other site 657316000891 substrate binding site [chemical binding]; other site 657316000892 ATP binding site [chemical binding]; other site 657316000893 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 657316000894 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 657316000895 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 657316000896 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 657316000897 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 657316000898 active site 657316000899 motif I; other site 657316000900 motif II; other site 657316000901 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 657316000902 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 657316000903 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 657316000904 Walker A motif; other site 657316000905 ATP binding site [chemical binding]; other site 657316000906 Walker B motif; other site 657316000907 arginine finger; other site 657316000908 Rubrerythrin [Energy production and conversion]; Region: COG1592 657316000909 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 657316000910 binuclear metal center [ion binding]; other site 657316000911 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 657316000912 iron binding site [ion binding]; other site 657316000913 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 657316000914 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 657316000915 dimer interface [polypeptide binding]; other site 657316000916 PYR/PP interface [polypeptide binding]; other site 657316000917 TPP binding site [chemical binding]; other site 657316000918 substrate binding site [chemical binding]; other site 657316000919 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657316000920 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 657316000921 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 657316000922 TPP-binding site [chemical binding]; other site 657316000923 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 657316000924 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 657316000925 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 657316000926 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 657316000927 substrate binding site [chemical binding]; other site 657316000928 active site 657316000929 catalytic residues [active] 657316000930 heterodimer interface [polypeptide binding]; other site 657316000931 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 657316000932 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 657316000933 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316000934 catalytic residue [active] 657316000935 indole-3-glycerol-phosphate synthase; Reviewed; Region: trpC; PRK00278 657316000936 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 657316000937 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 657316000938 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 657316000939 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 657316000940 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 657316000941 catalytic triad [active] 657316000942 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 657316000943 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 657316000944 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 657316000945 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 657316000946 ParB-like nuclease domain; Region: ParBc; pfam02195 657316000947 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 657316000948 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 657316000949 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 657316000950 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 657316000951 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 657316000952 substrate binding pocket [chemical binding]; other site 657316000953 dimer interface [polypeptide binding]; other site 657316000954 inhibitor binding site; inhibition site 657316000955 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 657316000956 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 657316000957 B12 binding site [chemical binding]; other site 657316000958 cobalt ligand [ion binding]; other site 657316000959 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657316000960 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657316000961 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 657316000962 dimerization interface [polypeptide binding]; other site 657316000963 AzlC protein; Region: AzlC; pfam03591 657316000964 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 657316000965 PRD domain; Region: PRD; pfam00874 657316000966 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 657316000967 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 657316000968 Walker A motif; other site 657316000969 ATP binding site [chemical binding]; other site 657316000970 Walker B motif; other site 657316000971 arginine finger; other site 657316000972 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 657316000973 active site 657316000974 phosphorylation site [posttranslational modification] 657316000975 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 657316000976 active site 657316000977 P-loop; other site 657316000978 phosphorylation site [posttranslational modification] 657316000979 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 657316000980 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 657316000981 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 657316000982 intersubunit interface [polypeptide binding]; other site 657316000983 active site 657316000984 Zn2+ binding site [ion binding]; other site 657316000985 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 657316000986 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 657316000987 DAK2 domain; Region: Dak2; pfam02734 657316000988 6-phosphofructokinase; Provisional; Region: PRK03202 657316000989 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 657316000990 active site 657316000991 ADP/pyrophosphate binding site [chemical binding]; other site 657316000992 dimerization interface [polypeptide binding]; other site 657316000993 allosteric effector site; other site 657316000994 fructose-1,6-bisphosphate binding site; other site 657316000995 5-aminoimidazole-4-carboxamide ribonucleotide transformylase; Provisional; Region: PRK07106 657316000996 AICAR transformylase/IMP cyclohydrolase PurH (only IMP cyclohydrolase domain in Aful) [Nucleotide transport and metabolism]; Region: PurH; COG0138 657316000997 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 657316000998 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657316000999 DNA-binding site [nucleotide binding]; DNA binding site 657316001000 UTRA domain; Region: UTRA; pfam07702 657316001001 Class I aldolases; Region: Aldolase_Class_I; cl17187 657316001002 Class I aldolases; Region: Aldolase_Class_I; cl17187 657316001003 Class I aldolases; Region: Aldolase_Class_I; cl17187 657316001004 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 657316001005 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 657316001006 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 657316001007 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 657316001008 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 657316001009 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 657316001010 trmE is a tRNA modification GTPase; Region: trmE; cd04164 657316001011 G1 box; other site 657316001012 GTP/Mg2+ binding site [chemical binding]; other site 657316001013 Switch I region; other site 657316001014 G2 box; other site 657316001015 Switch II region; other site 657316001016 G3 box; other site 657316001017 G4 box; other site 657316001018 G5 box; other site 657316001019 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 657316001020 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 657316001021 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 657316001022 G-X-X-G motif; other site 657316001023 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 657316001024 RxxxH motif; other site 657316001025 ribonuclease P; Reviewed; Region: rnpA; PRK00499 657316001026 DnaA N-terminal domain; Region: DnaA_N; pfam11638 657316001027 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 657316001028 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 657316001029 DnaA box-binding interface [nucleotide binding]; other site 657316001030 DNA polymerase III subunit beta; Validated; Region: PRK05643 657316001031 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 657316001032 putative DNA binding surface [nucleotide binding]; other site 657316001033 dimer interface [polypeptide binding]; other site 657316001034 beta-clamp/translesion DNA polymerase binding surface; other site 657316001035 beta-clamp/clamp loader binding surface; other site 657316001036 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657316001037 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 657316001038 Walker A/P-loop; other site 657316001039 ATP binding site [chemical binding]; other site 657316001040 Q-loop/lid; other site 657316001041 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657316001042 ABC transporter signature motif; other site 657316001043 Walker B; other site 657316001044 D-loop; other site 657316001045 H-loop/switch region; other site 657316001046 Protein of unknown function (DUF721); Region: DUF721; pfam05258 657316001047 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 657316001048 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 657316001049 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 657316001050 active site 657316001051 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 657316001052 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 657316001053 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657316001054 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 657316001055 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 657316001056 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 657316001057 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 657316001058 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 657316001059 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 657316001060 putative substrate translocation pore; other site 657316001061 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 657316001062 phosphate binding site [ion binding]; other site 657316001063 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 657316001064 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 657316001065 putative substrate translocation pore; other site 657316001066 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 657316001067 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 657316001068 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 657316001069 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657316001070 putative substrate translocation pore; other site 657316001071 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 657316001072 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 657316001073 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 657316001074 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 657316001075 dimer interface [polypeptide binding]; other site 657316001076 ssDNA binding site [nucleotide binding]; other site 657316001077 tetramer (dimer of dimers) interface [polypeptide binding]; other site 657316001078 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 657316001079 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657316001080 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657316001081 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 657316001082 putative dimerization interface [polypeptide binding]; other site 657316001083 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cl11435 657316001084 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 657316001085 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 657316001086 putative dimer interface [polypeptide binding]; other site 657316001087 active site pocket [active] 657316001088 putative cataytic base [active] 657316001089 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cl11435 657316001090 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 657316001091 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 657316001092 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 657316001093 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 657316001094 RNA binding site [nucleotide binding]; other site 657316001095 Homoserine O-succinyltransferase; Region: HTS; pfam04204 657316001096 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 657316001097 proposed active site lysine [active] 657316001098 conserved cys residue [active] 657316001099 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 657316001100 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 657316001101 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 657316001102 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657316001103 DNA-binding site [nucleotide binding]; DNA binding site 657316001104 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 657316001105 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 657316001106 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 657316001107 putative active site [active] 657316001108 metal binding site [ion binding]; metal-binding site 657316001109 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 657316001110 intersubunit interface [polypeptide binding]; other site 657316001111 active site 657316001112 zinc binding site [ion binding]; other site 657316001113 Na+ binding site [ion binding]; other site 657316001114 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 657316001115 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 657316001116 substrate binding site [chemical binding]; other site 657316001117 ATP binding site [chemical binding]; other site 657316001118 KduI/IolB family; Region: KduI; pfam04962 657316001119 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 657316001120 PYR/PP interface [polypeptide binding]; other site 657316001121 dimer interface [polypeptide binding]; other site 657316001122 TPP binding site [chemical binding]; other site 657316001123 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 657316001124 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 657316001125 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 657316001126 TPP-binding site; other site 657316001127 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 657316001128 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 657316001129 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 657316001130 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 657316001131 active site 657316001132 substrate binding site [chemical binding]; other site 657316001133 trimer interface [polypeptide binding]; other site 657316001134 CoA binding site [chemical binding]; other site 657316001135 maltose O-acetyltransferase; Provisional; Region: PRK10092 657316001136 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 657316001137 active site 657316001138 substrate binding site [chemical binding]; other site 657316001139 trimer interface [polypeptide binding]; other site 657316001140 CoA binding site [chemical binding]; other site 657316001141 maltose O-acetyltransferase; Provisional; Region: PRK10092 657316001142 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 657316001143 active site 657316001144 substrate binding site [chemical binding]; other site 657316001145 trimer interface [polypeptide binding]; other site 657316001146 CoA binding site [chemical binding]; other site 657316001147 EamA-like transporter family; Region: EamA; pfam00892 657316001148 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 657316001149 EamA-like transporter family; Region: EamA; pfam00892 657316001150 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 657316001151 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 657316001152 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 657316001153 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 657316001154 Cupin domain; Region: Cupin_2; cl17218 657316001155 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657316001156 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657316001157 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 657316001158 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 657316001159 MFS/sugar transport protein; Region: MFS_2; pfam13347 657316001160 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 657316001161 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657316001162 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 657316001163 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 657316001164 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 657316001165 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 657316001166 nudix motif; other site 657316001167 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 657316001168 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 657316001169 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 657316001170 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 657316001171 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 657316001172 TPR repeat; Region: TPR_11; pfam13414 657316001173 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 657316001174 TPR motif; other site 657316001175 binding surface 657316001176 TPR repeat; Region: TPR_11; pfam13414 657316001177 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 657316001178 binding surface 657316001179 TPR motif; other site 657316001180 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 657316001181 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 657316001182 GDP-binding site [chemical binding]; other site 657316001183 ACT binding site; other site 657316001184 IMP binding site; other site 657316001185 adenylosuccinate lyase; Provisional; Region: PRK07492 657316001186 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 657316001187 tetramer interface [polypeptide binding]; other site 657316001188 active site 657316001189 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 657316001190 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 657316001191 Walker A motif; other site 657316001192 ATP binding site [chemical binding]; other site 657316001193 Walker B motif; other site 657316001194 arginine finger; other site 657316001195 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 657316001196 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 657316001197 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 657316001198 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 657316001199 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 657316001200 DHH family; Region: DHH; pfam01368 657316001201 DHHA1 domain; Region: DHHA1; pfam02272 657316001202 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 657316001203 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 657316001204 active site 657316001205 dimer interface [polypeptide binding]; other site 657316001206 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 657316001207 Rubredoxin; Region: Rubredoxin; pfam00301 657316001208 iron binding site [ion binding]; other site 657316001209 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 657316001210 Rubrerythrin [Energy production and conversion]; Region: COG1592 657316001211 diiron binding motif [ion binding]; other site 657316001212 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 657316001213 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 657316001214 active site 657316001215 metal binding site [ion binding]; metal-binding site 657316001216 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 657316001217 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 657316001218 NAD binding site [chemical binding]; other site 657316001219 ligand binding site [chemical binding]; other site 657316001220 catalytic site [active] 657316001221 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 657316001222 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cl00018 657316001223 non-heme iron binding site [ion binding]; other site 657316001224 dimer interface [polypeptide binding]; other site 657316001225 Desulfoferrodoxin; Region: Desulfoferrodox; pfam01880 657316001226 non-heme iron binding site [ion binding]; other site 657316001227 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 657316001228 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 657316001229 active site 657316001230 catalytic site [active] 657316001231 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme; Region: E_set_GDE_N; cd11234 657316001232 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 657316001233 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 657316001234 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 657316001235 active site 657316001236 phosphorylation site [posttranslational modification] 657316001237 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 657316001238 active site 657316001239 P-loop; other site 657316001240 phosphorylation site [posttranslational modification] 657316001241 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 657316001242 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 657316001243 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 657316001244 putative substrate binding site [chemical binding]; other site 657316001245 putative ATP binding site [chemical binding]; other site 657316001246 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 657316001247 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 657316001248 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 657316001249 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 657316001250 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 657316001251 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 657316001252 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 657316001253 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 657316001254 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 657316001255 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 657316001256 putative substrate-binding site; other site 657316001257 nickel binding site [ion binding]; other site 657316001258 Acylphosphatase; Region: Acylphosphatase; pfam00708 657316001259 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 657316001260 HypF finger; Region: zf-HYPF; pfam07503 657316001261 HypF finger; Region: zf-HYPF; pfam07503 657316001262 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 657316001263 HupF/HypC family; Region: HupF_HypC; pfam01455 657316001264 Protein of unknown function DUF262; Region: DUF262; pfam03235 657316001265 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 657316001266 amino acid carrier protein; Region: agcS; TIGR00835 657316001267 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 657316001268 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 657316001269 Mg2+ binding site [ion binding]; other site 657316001270 G-X-G motif; other site 657316001271 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 657316001272 anchoring element; other site 657316001273 dimer interface [polypeptide binding]; other site 657316001274 ATP binding site [chemical binding]; other site 657316001275 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 657316001276 active site 657316001277 putative metal-binding site [ion binding]; other site 657316001278 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 657316001279 Uncharacterized conserved protein [Function unknown]; Region: COG2006 657316001280 Domain of unknown function (DUF362); Region: DUF362; pfam04015 657316001281 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 657316001282 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 657316001283 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 657316001284 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 657316001285 active site 657316001286 homodimer interface [polypeptide binding]; other site 657316001287 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 657316001288 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 657316001289 Mg++ binding site [ion binding]; other site 657316001290 putative catalytic motif [active] 657316001291 substrate binding site [chemical binding]; other site 657316001292 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657316001293 active site 657316001294 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 657316001295 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657316001296 catalytic residue [active] 657316001297 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 657316001298 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 657316001299 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 657316001300 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 657316001301 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 657316001302 S-adenosylmethionine binding site [chemical binding]; other site 657316001303 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 657316001304 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 657316001305 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 657316001306 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 657316001307 Walker A motif; other site 657316001308 ATP binding site [chemical binding]; other site 657316001309 Walker B motif; other site 657316001310 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 657316001311 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 657316001312 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 657316001313 active site 657316001314 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657316001315 dimer interface [polypeptide binding]; other site 657316001316 substrate binding site [chemical binding]; other site 657316001317 catalytic residues [active] 657316001318 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 657316001319 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 657316001320 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316001321 homodimer interface [polypeptide binding]; other site 657316001322 catalytic residue [active] 657316001323 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 657316001324 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 657316001325 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657316001326 active site 657316001327 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 657316001328 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 657316001329 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 657316001330 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 657316001331 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 657316001332 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 657316001333 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657316001334 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 657316001335 IMP binding site; other site 657316001336 dimer interface [polypeptide binding]; other site 657316001337 interdomain contacts; other site 657316001338 partial ornithine binding site; other site 657316001339 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 657316001340 Glutamine amidotransferase class-I; Region: GATase; pfam00117 657316001341 catalytic site [active] 657316001342 subunit interface [polypeptide binding]; other site 657316001343 dihydroorotase; Validated; Region: pyrC; PRK09357 657316001344 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 657316001345 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 657316001346 active site 657316001347 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 657316001348 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 657316001349 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 657316001350 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 657316001351 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 657316001352 N-acetyl-D-glucosamine binding site [chemical binding]; other site 657316001353 catalytic residue [active] 657316001354 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 657316001355 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 657316001356 CoA-binding site [chemical binding]; other site 657316001357 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 657316001358 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 657316001359 ATP-binding [chemical binding]; other site 657316001360 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 657316001361 catalytic site [active] 657316001362 5'-3' exonuclease, N-terminal resolvase-like domain; Region: 5_3_exonuc_N; pfam02739 657316001363 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 657316001364 active site 657316001365 metal binding site 1 [ion binding]; metal-binding site 657316001366 putative 5' ssDNA interaction site; other site 657316001367 metal binding site 3; metal-binding site 657316001368 metal binding site 2 [ion binding]; metal-binding site 657316001369 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 657316001370 putative DNA binding site [nucleotide binding]; other site 657316001371 putative metal binding site [ion binding]; other site 657316001372 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 657316001373 4Fe-4S binding domain; Region: Fer4; pfam00037 657316001374 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 657316001375 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 657316001376 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 657316001377 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 657316001378 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 657316001379 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 657316001380 Walker A; other site 657316001381 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 657316001382 B12 binding site [chemical binding]; other site 657316001383 cobalt ligand [ion binding]; other site 657316001384 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 657316001385 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 657316001386 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 657316001387 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 657316001388 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657316001389 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 657316001390 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657316001391 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 657316001392 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657316001393 active site 657316001394 HIGH motif; other site 657316001395 nucleotide binding site [chemical binding]; other site 657316001396 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 657316001397 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 657316001398 active site 657316001399 KMSKS motif; other site 657316001400 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 657316001401 tRNA binding surface [nucleotide binding]; other site 657316001402 anticodon binding site; other site 657316001403 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 657316001404 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 657316001405 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 657316001406 dimerization domain swap beta strand [polypeptide binding]; other site 657316001407 regulatory protein interface [polypeptide binding]; other site 657316001408 active site 657316001409 regulatory phosphorylation site [posttranslational modification]; other site 657316001410 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657316001411 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657316001412 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 657316001413 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 657316001414 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 657316001415 active site 657316001416 substrate binding site [chemical binding]; other site 657316001417 catalytic site [active] 657316001418 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657316001419 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657316001420 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 657316001421 dimerization interface [polypeptide binding]; other site 657316001422 Glycerol dehydrogenase-like; Region: GlyDH-like2; cd08171 657316001423 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 657316001424 putative active site [active] 657316001425 metal binding site [ion binding]; metal-binding site 657316001426 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 657316001427 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 657316001428 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 657316001429 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 657316001430 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657316001431 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 657316001432 non-specific DNA binding site [nucleotide binding]; other site 657316001433 salt bridge; other site 657316001434 sequence-specific DNA binding site [nucleotide binding]; other site 657316001435 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 657316001436 non-specific DNA binding site [nucleotide binding]; other site 657316001437 salt bridge; other site 657316001438 sequence-specific DNA binding site [nucleotide binding]; other site 657316001439 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 657316001440 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 657316001441 Double zinc ribbon; Region: DZR; pfam12773 657316001442 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 657316001443 Protein of unknown function (DUF805); Region: DUF805; pfam05656 657316001444 Protein of unknown function (DUF805); Region: DUF805; pfam05656 657316001445 Flagellin N-methylase; Region: FliB; pfam03692 657316001446 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 657316001447 sequence-specific DNA binding site [nucleotide binding]; other site 657316001448 salt bridge; other site 657316001449 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657316001450 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657316001451 Walker A/P-loop; other site 657316001452 ATP binding site [chemical binding]; other site 657316001453 Q-loop/lid; other site 657316001454 ABC transporter signature motif; other site 657316001455 Walker B; other site 657316001456 D-loop; other site 657316001457 H-loop/switch region; other site 657316001458 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 657316001459 tetramerization interface [polypeptide binding]; other site 657316001460 active site 657316001461 pantoate--beta-alanine ligase; Region: panC; TIGR00018 657316001462 Pantoate-beta-alanine ligase; Region: PanC; cd00560 657316001463 active site 657316001464 ATP-binding site [chemical binding]; other site 657316001465 pantoate-binding site; other site 657316001466 HXXH motif; other site 657316001467 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657316001468 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657316001469 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 657316001470 putative dimerization interface [polypeptide binding]; other site 657316001471 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 657316001472 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 657316001473 motif II; other site 657316001474 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 657316001475 4Fe-4S single cluster domain; Region: Fer4_14; pfam13394 657316001476 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 657316001477 FeS/SAM binding site; other site 657316001478 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 657316001479 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 657316001480 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657316001481 catalytic residues [active] 657316001482 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 657316001483 putative N- and C-terminal domain interface [polypeptide binding]; other site 657316001484 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 657316001485 putative active site [active] 657316001486 MgATP binding site [chemical binding]; other site 657316001487 catalytic site [active] 657316001488 metal binding site [ion binding]; metal-binding site 657316001489 putative carbohydrate binding site [chemical binding]; other site 657316001490 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 657316001491 Peptidase family M23; Region: Peptidase_M23; pfam01551 657316001492 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 657316001493 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 657316001494 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 657316001495 Transposase IS200 like; Region: Y1_Tnp; pfam01797 657316001496 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 657316001497 dimer interface [polypeptide binding]; other site 657316001498 substrate binding site [chemical binding]; other site 657316001499 ATP binding site [chemical binding]; other site 657316001500 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 657316001501 Asp23 family; Region: Asp23; pfam03780 657316001502 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 657316001503 Domain of unknown function (DUF3552); Region: DUF3552; pfam12072 657316001504 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 657316001505 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657316001506 Zn2+ binding site [ion binding]; other site 657316001507 Mg2+ binding site [ion binding]; other site 657316001508 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 657316001509 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657316001510 Zn2+ binding site [ion binding]; other site 657316001511 Mg2+ binding site [ion binding]; other site 657316001512 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 657316001513 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 657316001514 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 657316001515 DNA binding site [nucleotide binding] 657316001516 active site 657316001517 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 657316001518 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 657316001519 active site 657316001520 motif I; other site 657316001521 motif II; other site 657316001522 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 657316001523 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 657316001524 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 657316001525 S-adenosylmethionine binding site [chemical binding]; other site 657316001526 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 657316001527 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 657316001528 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 657316001529 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 657316001530 FOG: CBS domain [General function prediction only]; Region: COG0517 657316001531 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 657316001532 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 657316001533 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 657316001534 Walker A/P-loop; other site 657316001535 ATP binding site [chemical binding]; other site 657316001536 Q-loop/lid; other site 657316001537 ABC transporter signature motif; other site 657316001538 Walker B; other site 657316001539 D-loop; other site 657316001540 H-loop/switch region; other site 657316001541 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 657316001542 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 657316001543 Walker A/P-loop; other site 657316001544 ATP binding site [chemical binding]; other site 657316001545 Q-loop/lid; other site 657316001546 ABC transporter signature motif; other site 657316001547 Walker B; other site 657316001548 D-loop; other site 657316001549 H-loop/switch region; other site 657316001550 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 657316001551 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 657316001552 TM-ABC transporter signature motif; other site 657316001553 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; cl00454 657316001554 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 657316001555 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 657316001556 TM-ABC transporter signature motif; other site 657316001557 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 657316001558 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 657316001559 putative ligand binding site [chemical binding]; other site 657316001560 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 657316001561 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 657316001562 nucleotide binding site/active site [active] 657316001563 HIT family signature motif; other site 657316001564 catalytic residue [active] 657316001565 putative lipid kinase; Reviewed; Region: PRK13059 657316001566 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 657316001567 EamA-like transporter family; Region: EamA; pfam00892 657316001568 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 657316001569 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 657316001570 FeS/SAM binding site; other site 657316001571 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 657316001572 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 657316001573 Transcriptional regulator; Region: Rrf2; cl17282 657316001574 Rrf2 family protein; Region: rrf2_super; TIGR00738 657316001575 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 657316001576 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 657316001577 HIGH motif; other site 657316001578 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 657316001579 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 657316001580 active site 657316001581 KMSKS motif; other site 657316001582 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 657316001583 tRNA binding surface [nucleotide binding]; other site 657316001584 Predicted membrane protein [Function unknown]; Region: COG3212 657316001585 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 657316001586 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 657316001587 G1 box; other site 657316001588 GTP/Mg2+ binding site [chemical binding]; other site 657316001589 Switch I region; other site 657316001590 G2 box; other site 657316001591 G3 box; other site 657316001592 Switch II region; other site 657316001593 G4 box; other site 657316001594 G5 box; other site 657316001595 Nucleoside recognition; Region: Gate; pfam07670 657316001596 Nucleoside recognition; Region: Gate; pfam07670 657316001597 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3416 657316001598 SigmaK-factor processing regulatory protein BofA; Region: BofA; cl06466 657316001599 recombination protein RecR; Reviewed; Region: recR; PRK00076 657316001600 RecR protein; Region: RecR; pfam02132 657316001601 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 657316001602 putative active site [active] 657316001603 putative metal-binding site [ion binding]; other site 657316001604 tetramer interface [polypeptide binding]; other site 657316001605 hypothetical protein; Validated; Region: PRK00153 657316001606 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 657316001607 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 657316001608 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 657316001609 Walker A motif; other site 657316001610 ATP binding site [chemical binding]; other site 657316001611 Walker B motif; other site 657316001612 arginine finger; other site 657316001613 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 657316001614 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 657316001615 dimer interface [polypeptide binding]; other site 657316001616 active site 657316001617 Schiff base residues; other site 657316001618 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 657316001619 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 657316001620 active site 657316001621 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 657316001622 active site 657316001623 SAM binding site [chemical binding]; other site 657316001624 homodimer interface [polypeptide binding]; other site 657316001625 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 657316001626 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 657316001627 tRNA; other site 657316001628 putative tRNA binding site [nucleotide binding]; other site 657316001629 putative NADP binding site [chemical binding]; other site 657316001630 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 657316001631 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 657316001632 active site 657316001633 dimer interfaces [polypeptide binding]; other site 657316001634 catalytic residues [active] 657316001635 Uncharacterized conserved protein [Function unknown]; Region: COG2968 657316001636 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 657316001637 Sulfatase; Region: Sulfatase; cl17466 657316001638 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 657316001639 Sulfatase; Region: Sulfatase; cl17466 657316001640 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 657316001641 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 657316001642 active site 657316001643 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 657316001644 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 657316001645 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 657316001646 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 657316001647 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 657316001648 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 657316001649 nucleoside/Zn binding site; other site 657316001650 dimer interface [polypeptide binding]; other site 657316001651 catalytic motif [active] 657316001652 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657316001653 DNA-binding site [nucleotide binding]; DNA binding site 657316001654 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 657316001655 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 657316001656 xanthine permease; Region: pbuX; TIGR03173 657316001657 Helix-turn-helix domain; Region: HTH_18; pfam12833 657316001658 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657316001659 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 657316001660 Cupin domain; Region: Cupin_2; cl17218 657316001661 Protein of unknown function (DUF805); Region: DUF805; pfam05656 657316001662 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 657316001663 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 657316001664 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 657316001665 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 657316001666 ScpA/B protein; Region: ScpA_ScpB; cl00598 657316001667 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 657316001668 Peptidase family M50; Region: Peptidase_M50; pfam02163 657316001669 active site 657316001670 putative substrate binding region [chemical binding]; other site 657316001671 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 657316001672 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 657316001673 dimer interface [polypeptide binding]; other site 657316001674 conserved gate region; other site 657316001675 putative PBP binding loops; other site 657316001676 ABC-ATPase subunit interface; other site 657316001677 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 657316001678 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 657316001679 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 657316001680 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 657316001681 Q-loop/lid; other site 657316001682 ABC transporter signature motif; other site 657316001683 Walker B; other site 657316001684 D-loop; other site 657316001685 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 657316001686 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 657316001687 putative efflux protein, MATE family; Region: matE; TIGR00797 657316001688 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 657316001689 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 657316001690 active site 657316001691 motif I; other site 657316001692 motif II; other site 657316001693 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 657316001694 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 657316001695 E1_ThiF_like. Member of superfamily of activating enzymes (E1) of the ubiquitin-like proteins. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on...; Region: E1_ThiF_like; cd01487 657316001696 putative ATP binding site [chemical binding]; other site 657316001697 putative substrate interface [chemical binding]; other site 657316001698 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 657316001699 ThiS interaction site; other site 657316001700 putative active site [active] 657316001701 tetramer interface [polypeptide binding]; other site 657316001702 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 657316001703 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 657316001704 FeS/SAM binding site; other site 657316001705 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 657316001706 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 657316001707 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 657316001708 Restriction endonuclease; Region: Mrr_cat; pfam04471 657316001709 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 657316001710 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 657316001711 amidase catalytic site [active] 657316001712 Zn binding residues [ion binding]; other site 657316001713 substrate binding site [chemical binding]; other site 657316001714 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 657316001715 homodimer interface [polypeptide binding]; other site 657316001716 putative active site [active] 657316001717 catalytic site [active] 657316001718 TIGR04076 family protein; Region: TIGR04076 657316001719 L-fucose transporter; Provisional; Region: PRK10133; cl17665 657316001720 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 657316001721 putative substrate translocation pore; other site 657316001722 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 657316001723 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 657316001724 N- and C-terminal domain interface [polypeptide binding]; other site 657316001725 active site 657316001726 carbohydrate binding site [chemical binding]; other site 657316001727 ATP binding site [chemical binding]; other site 657316001728 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 657316001729 nucleotide binding site [chemical binding]; other site 657316001730 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 657316001731 intersubunit interface [polypeptide binding]; other site 657316001732 active site 657316001733 Zn2+ binding site [ion binding]; other site 657316001734 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 657316001735 trimer interface [polypeptide binding]; other site 657316001736 hexamer (dimer of trimers) interface [polypeptide binding]; other site 657316001737 substrate binding site [chemical binding]; other site 657316001738 Mn binding site [ion binding]; other site 657316001739 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 657316001740 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657316001741 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657316001742 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657316001743 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657316001744 bacterial Hfq-like; Region: Hfq; cd01716 657316001745 hexamer interface [polypeptide binding]; other site 657316001746 Sm1 motif; other site 657316001747 RNA binding site [nucleotide binding]; other site 657316001748 Sm2 motif; other site 657316001749 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; cl17639 657316001750 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 657316001751 metal-dependent hydrolase; Provisional; Region: PRK00685 657316001752 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 657316001753 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 657316001754 Walker A/P-loop; other site 657316001755 ATP binding site [chemical binding]; other site 657316001756 Q-loop/lid; other site 657316001757 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 657316001758 Q-loop/lid; other site 657316001759 ABC transporter signature motif; other site 657316001760 Walker B; other site 657316001761 D-loop; other site 657316001762 H-loop/switch region; other site 657316001763 arginine repressor; Provisional; Region: PRK04280 657316001764 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 657316001765 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 657316001766 Methyltransferase domain; Region: Methyltransf_31; pfam13847 657316001767 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 657316001768 S-adenosylmethionine binding site [chemical binding]; other site 657316001769 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 657316001770 ATP-NAD kinase; Region: NAD_kinase; pfam01513 657316001771 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 657316001772 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 657316001773 RNA binding surface [nucleotide binding]; other site 657316001774 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 657316001775 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 657316001776 PYR/PP interface [polypeptide binding]; other site 657316001777 dimer interface [polypeptide binding]; other site 657316001778 TPP binding site [chemical binding]; other site 657316001779 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657316001780 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 657316001781 TPP-binding site; other site 657316001782 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 657316001783 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 657316001784 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 657316001785 substrate binding pocket [chemical binding]; other site 657316001786 chain length determination region; other site 657316001787 substrate-Mg2+ binding site; other site 657316001788 catalytic residues [active] 657316001789 aspartate-rich region 1; other site 657316001790 active site lid residues [active] 657316001791 aspartate-rich region 2; other site 657316001792 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 657316001793 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 657316001794 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 657316001795 generic binding surface II; other site 657316001796 generic binding surface I; other site 657316001797 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 657316001798 putative RNA binding site [nucleotide binding]; other site 657316001799 Small integral membrane protein (DUF2273); Region: DUF2273; pfam10031 657316001800 Asp23 family; Region: Asp23; cl00574 657316001801 elongation factor P; Validated; Region: PRK00529 657316001802 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 657316001803 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 657316001804 RNA binding site [nucleotide binding]; other site 657316001805 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 657316001806 RNA binding site [nucleotide binding]; other site 657316001807 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 657316001808 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 657316001809 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 657316001810 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 657316001811 active site 657316001812 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 657316001813 Dehydroquinase class II; Region: DHquinase_II; pfam01220 657316001814 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 657316001815 trimer interface [polypeptide binding]; other site 657316001816 active site 657316001817 dimer interface [polypeptide binding]; other site 657316001818 Acylphosphatase; Region: Acylphosphatase; pfam00708 657316001819 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 657316001820 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 657316001821 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 657316001822 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 657316001823 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 657316001824 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 657316001825 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 657316001826 inhibitor-cofactor binding pocket; inhibition site 657316001827 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316001828 catalytic residue [active] 657316001829 Peptidase family U32; Region: Peptidase_U32; pfam01136 657316001830 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 657316001831 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 657316001832 Peptidase family U32; Region: Peptidase_U32; cl03113 657316001833 recombinase A; Provisional; Region: recA; PRK09354 657316001834 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 657316001835 hexamer interface [polypeptide binding]; other site 657316001836 Walker A motif; other site 657316001837 ATP binding site [chemical binding]; other site 657316001838 Walker B motif; other site 657316001839 recombination regulator RecX; Reviewed; Region: recX; PRK00117 657316001840 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 657316001841 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 657316001842 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 657316001843 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 657316001844 amino acid carrier protein; Region: agcS; TIGR00835 657316001845 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 657316001846 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 657316001847 dimer interface [polypeptide binding]; other site 657316001848 active site 657316001849 catalytic residue [active] 657316001850 Class I aldolases; Region: Aldolase_Class_I; cl17187 657316001851 Domain of unknown function (DUF4261); Region: DUF4261; pfam14080 657316001852 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 657316001853 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 657316001854 Beta-Casp domain; Region: Beta-Casp; smart01027 657316001855 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 657316001856 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 657316001857 Peptidase M16C associated; Region: M16C_assoc; pfam08367 657316001858 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657316001859 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 657316001860 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 657316001861 purine monophosphate binding site [chemical binding]; other site 657316001862 dimer interface [polypeptide binding]; other site 657316001863 putative catalytic residues [active] 657316001864 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 657316001865 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 657316001866 active site 657316001867 substrate binding site [chemical binding]; other site 657316001868 cosubstrate binding site; other site 657316001869 catalytic site [active] 657316001870 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 657316001871 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 657316001872 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 657316001873 dimerization interface [polypeptide binding]; other site 657316001874 putative ATP binding site [chemical binding]; other site 657316001875 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657316001876 active site 657316001877 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 657316001878 Glutamine amidotransferases class-II; Region: GATase_2; pfam00310 657316001879 active site 657316001880 tetramer interface [polypeptide binding]; other site 657316001881 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt; cl00231 657316001882 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt; cl00231 657316001883 AIR carboxylase; Region: AIRC; cl00310 657316001884 aspartate kinase; Reviewed; Region: PRK06635 657316001885 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 657316001886 putative nucleotide binding site [chemical binding]; other site 657316001887 putative catalytic residues [active] 657316001888 putative Mg ion binding site [ion binding]; other site 657316001889 putative aspartate binding site [chemical binding]; other site 657316001890 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 657316001891 putative allosteric regulatory site; other site 657316001892 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 657316001893 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 657316001894 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 657316001895 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 657316001896 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 657316001897 Phosphate transporter family; Region: PHO4; pfam01384 657316001898 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 657316001899 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 657316001900 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 657316001901 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 657316001902 Flavoprotein; Region: Flavoprotein; pfam02441 657316001903 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 657316001904 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 657316001905 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 657316001906 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 657316001907 catalytic site [active] 657316001908 G-X2-G-X-G-K; other site 657316001909 Domain of unknown function (DUF370); Region: DUF370; cl00898 657316001910 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 657316001911 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 657316001912 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 657316001913 Domain of unknown function (DUF814); Region: DUF814; pfam05670 657316001914 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_ATP; cd00484 657316001915 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 657316001916 active site 657316001917 substrate-binding site [chemical binding]; other site 657316001918 metal-binding site [ion binding] 657316001919 ATP binding site [chemical binding]; other site 657316001920 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657316001921 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657316001922 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 657316001923 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 657316001924 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 657316001925 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657316001926 Zn2+ binding site [ion binding]; other site 657316001927 Mg2+ binding site [ion binding]; other site 657316001928 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 657316001929 uracil transporter; Provisional; Region: PRK10720 657316001930 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 657316001931 nucleoside/Zn binding site; other site 657316001932 dimer interface [polypeptide binding]; other site 657316001933 catalytic motif [active] 657316001934 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 657316001935 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 657316001936 P loop; other site 657316001937 GTP binding site [chemical binding]; other site 657316001938 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 657316001939 ABC transporter signature motif; other site 657316001940 Walker B; other site 657316001941 D-loop; other site 657316001942 H-loop/switch region; other site 657316001943 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 657316001944 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 657316001945 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 657316001946 HlyD family secretion protein; Region: HlyD_3; pfam13437 657316001947 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 657316001948 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 657316001949 Q-loop/lid; other site 657316001950 ABC transporter signature motif; other site 657316001951 Walker B; other site 657316001952 D-loop; other site 657316001953 H-loop/switch region; other site 657316001954 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 657316001955 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 657316001956 putative PBP binding regions; other site 657316001957 ABC-ATPase subunit interface; other site 657316001958 isoaspartyl dipeptidase; Provisional; Region: PRK10657 657316001959 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 657316001960 active site 657316001961 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 657316001962 hypothetical protein; Provisional; Region: PRK10519 657316001963 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 657316001964 Creatinine amidohydrolase; Region: Creatininase; pfam02633 657316001965 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 657316001966 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 657316001967 Na binding site [ion binding]; other site 657316001968 PAS domain S-box; Region: sensory_box; TIGR00229 657316001969 PAS domain; Region: PAS; smart00091 657316001970 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 657316001971 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 657316001972 Walker A motif; other site 657316001973 ATP binding site [chemical binding]; other site 657316001974 Walker B motif; other site 657316001975 arginine finger; other site 657316001976 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 657316001977 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 657316001978 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 657316001979 galactoside permease; Reviewed; Region: lacY; PRK09528 657316001980 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 657316001981 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657316001982 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657316001983 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657316001984 DNA binding site [nucleotide binding] 657316001985 domain linker motif; other site 657316001986 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 657316001987 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 657316001988 oligomerisation interface [polypeptide binding]; other site 657316001989 mobile loop; other site 657316001990 roof hairpin; other site 657316001991 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 657316001992 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 657316001993 ring oligomerisation interface [polypeptide binding]; other site 657316001994 ATP/Mg binding site [chemical binding]; other site 657316001995 hinge regions; other site 657316001996 chaperonin_like superfamily. 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. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 657316001997 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 657316001998 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 657316001999 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 657316002000 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 657316002001 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 657316002002 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 657316002003 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 657316002004 active site residue [active] 657316002005 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 657316002006 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657316002007 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657316002008 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657316002009 Predicted transcriptional regulators [Transcription]; Region: COG1733 657316002010 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 657316002011 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 657316002012 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 657316002013 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 657316002014 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 657316002015 Domain of unknown function (DUF955); Region: DUF955; pfam06114 657316002016 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 657316002017 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 657316002018 metal binding site [ion binding]; metal-binding site 657316002019 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 657316002020 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 657316002021 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; cd01292 657316002022 active site 657316002023 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 657316002024 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657316002025 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 657316002026 EcsC protein family; Region: EcsC; pfam12787 657316002027 Transcriptional regulator; Region: Rrf2; cl17282 657316002028 Transcriptional regulator; Region: Rrf2; cl17282 657316002029 flavoprotein, HI0933 family; Region: TIGR00275 657316002030 flavoprotein, HI0933 family; Region: TIGR00275 657316002031 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 657316002032 pseudouridine synthase; Region: TIGR00093 657316002033 active site 657316002034 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 657316002035 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 657316002036 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 657316002037 active site 657316002038 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 657316002039 DHH family; Region: DHH; pfam01368 657316002040 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 657316002041 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 657316002042 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 657316002043 putative RNA binding cleft [nucleotide binding]; other site 657316002044 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 657316002045 G-X-X-G motif; other site 657316002046 NusA N-terminal domain; Region: NusA_N; pfam08529 657316002047 Sm and related proteins; Region: Sm_like; cl00259 657316002048 hexamer interface [polypeptide binding]; other site 657316002049 Sm1 motif; other site 657316002050 heptamer interface [polypeptide binding]; other site 657316002051 RNA binding site [nucleotide binding]; other site 657316002052 Sm2 motif; other site 657316002053 ribosome maturation protein RimP; Reviewed; Region: PRK00092 657316002054 Sm and related proteins; Region: Sm_like; cl00259 657316002055 YacP-like NYN domain; Region: NYN_YacP; cl01491 657316002056 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 657316002057 active site 657316002058 catalytic residues [active] 657316002059 metal binding site [ion binding]; metal-binding site 657316002060 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 657316002061 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 657316002062 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 657316002063 substrate binding site [chemical binding]; other site 657316002064 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 657316002065 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 657316002066 active site 657316002067 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 657316002068 dihydropteroate synthase; Region: DHPS; TIGR01496 657316002069 substrate binding pocket [chemical binding]; other site 657316002070 dimer interface [polypeptide binding]; other site 657316002071 inhibitor binding site; inhibition site 657316002072 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 657316002073 OPT oligopeptide transporter protein; Region: OPT; cl14607 657316002074 OPT oligopeptide transporter protein; Region: OPT; cl14607 657316002075 OPT oligopeptide transporter protein; Region: OPT; cl14607 657316002076 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657316002077 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 657316002078 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 657316002079 active site 657316002080 HIGH motif; other site 657316002081 dimer interface [polypeptide binding]; other site 657316002082 KMSKS motif; other site 657316002083 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 657316002084 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 657316002085 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 657316002086 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 657316002087 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 657316002088 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 657316002089 Sulfatase; Region: Sulfatase; cl17466 657316002090 Sulfatase; Region: Sulfatase; cl17466 657316002091 CutC family; Region: CutC; cl01218 657316002092 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 657316002093 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 657316002094 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 657316002095 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 657316002096 ABC-ATPase subunit interface; other site 657316002097 dimer interface [polypeptide binding]; other site 657316002098 putative PBP binding regions; other site 657316002099 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 657316002100 Rubredoxin; Region: Rubredoxin; pfam00301 657316002101 iron binding site [ion binding]; other site 657316002102 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657316002103 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657316002104 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657316002105 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657316002106 Melibiase; Region: Melibiase; pfam02065 657316002107 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 657316002108 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 657316002109 Catalytic domain of Protein Kinases; Region: PKc; cd00180 657316002110 active site 657316002111 ATP binding site [chemical binding]; other site 657316002112 substrate binding site [chemical binding]; other site 657316002113 activation loop (A-loop); other site 657316002114 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 657316002115 Protein phosphatase 2C; Region: PP2C; pfam00481 657316002116 active site 657316002117 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 657316002118 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 657316002119 phosphopeptide binding site; other site 657316002120 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 657316002121 DALR anticodon binding domain; Region: DALR_1; pfam05746 657316002122 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 657316002123 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 657316002124 dimer interface [polypeptide binding]; other site 657316002125 motif 1; other site 657316002126 active site 657316002127 motif 2; other site 657316002128 motif 3; other site 657316002129 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 657316002130 Na binding site [ion binding]; other site 657316002131 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 657316002132 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 657316002133 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 657316002134 Catalytic site [active] 657316002135 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 657316002136 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 657316002137 putative active site [active] 657316002138 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 657316002139 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 657316002140 Clp amino terminal domain; Region: Clp_N; pfam02861 657316002141 Clp amino terminal domain; Region: Clp_N; pfam02861 657316002142 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 657316002143 Walker A motif; other site 657316002144 ATP binding site [chemical binding]; other site 657316002145 Walker B motif; other site 657316002146 arginine finger; other site 657316002147 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 657316002148 Walker A motif; other site 657316002149 ATP binding site [chemical binding]; other site 657316002150 Walker B motif; other site 657316002151 arginine finger; other site 657316002152 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 657316002153 S-adenosylmethionine synthetase; Validated; Region: PRK05250 657316002154 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 657316002155 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 657316002156 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 657316002157 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 657316002158 primosome assembly protein PriA; Validated; Region: PRK05580 657316002159 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 657316002160 Ligand Binding Site [chemical binding]; other site 657316002161 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 657316002162 RecO N terminal; Region: RecO_N_2; pfam13114 657316002163 Recombination protein O C terminal; Region: RecO_C; pfam02565 657316002164 Uncharacterized conserved protein [Function unknown]; Region: COG2928 657316002165 metal-binding heat shock protein; Provisional; Region: PRK00016 657316002166 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 657316002167 PhoH-like protein; Region: PhoH; pfam02562 657316002168 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 657316002169 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657316002170 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657316002171 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657316002172 Yqey-like protein; Region: YqeY; cl17540 657316002173 Yqey-like protein; Region: YqeY; cl17540 657316002174 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 657316002175 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 657316002176 nucleotide binding site/active site [active] 657316002177 HIT family signature motif; other site 657316002178 catalytic residue [active] 657316002179 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 657316002180 RNA methyltransferase, RsmE family; Region: TIGR00046 657316002181 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 657316002182 Domain of unknown function (DUF305); Region: DUF305; cl17794 657316002183 Domain of unknown function (DUF305); Region: DUF305; pfam03713 657316002184 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 657316002185 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 657316002186 dimer interface [polypeptide binding]; other site 657316002187 active site 657316002188 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 657316002189 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 657316002190 ACS interaction site; other site 657316002191 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 657316002192 ACS interaction site; other site 657316002193 CODH interaction site; other site 657316002194 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 657316002195 metal cluster binding site [ion binding]; other site 657316002196 Flavodoxin domain; Region: Flavodoxin_3; pfam12641 657316002197 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 657316002198 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 657316002199 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 657316002200 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 657316002201 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 657316002202 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 657316002203 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 657316002204 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657316002205 Walker A/P-loop; other site 657316002206 ATP binding site [chemical binding]; other site 657316002207 Q-loop/lid; other site 657316002208 NMT1-like family; Region: NMT1_2; pfam13379 657316002209 NMT1/THI5 like; Region: NMT1; pfam09084 657316002210 substrate binding pocket [chemical binding]; other site 657316002211 membrane-bound complex binding site; other site 657316002212 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 657316002213 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 657316002214 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 657316002215 Domain of unknown function; Region: EKR; smart00890 657316002216 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 657316002217 4Fe-4S binding domain; Region: Fer4_6; pfam12837 657316002218 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 657316002219 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 657316002220 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 657316002221 TPP-binding site [chemical binding]; other site 657316002222 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 657316002223 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 657316002224 dimer interface [polypeptide binding]; other site 657316002225 PYR/PP interface [polypeptide binding]; other site 657316002226 TPP binding site [chemical binding]; other site 657316002227 substrate binding site [chemical binding]; other site 657316002228 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657316002229 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 657316002230 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 657316002231 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 657316002232 active site 657316002233 catalytic tetrad [active] 657316002234 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 657316002235 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 657316002236 DNA binding residues [nucleotide binding] 657316002237 putative dimer interface [polypeptide binding]; other site 657316002238 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657316002239 Coenzyme A binding pocket [chemical binding]; other site 657316002240 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 657316002241 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 657316002242 hypothetical protein; Validated; Region: PRK00194 657316002243 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 657316002244 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 657316002245 Protein of unknown function DUF111; Region: DUF111; cl03398 657316002246 Hemerythrin family; Region: Hemerythrin-like; cl15774 657316002247 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 657316002248 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657316002249 putative substrate translocation pore; other site 657316002250 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 657316002251 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 657316002252 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 657316002253 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 657316002254 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 657316002255 transmembrane helices; other site 657316002256 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 657316002257 RimM N-terminal domain; Region: RimM; pfam01782 657316002258 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 657316002259 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 657316002260 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 657316002261 hypothetical protein; Provisional; Region: PRK00468 657316002262 putative DNA-binding protein; Validated; Region: PRK00118 657316002263 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 657316002264 Na binding site [ion binding]; other site 657316002265 Uncharacterized conserved protein [Function unknown]; Region: COG1434 657316002266 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 657316002267 putative active site [active] 657316002268 transcriptional regulator SlyA; Provisional; Region: PRK03573 657316002269 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 657316002270 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 657316002271 active site 657316002272 phosphorylation site [posttranslational modification] 657316002273 intermolecular recognition site; other site 657316002274 dimerization interface [polypeptide binding]; other site 657316002275 ANTAR domain; Region: ANTAR; pfam03861 657316002276 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 657316002277 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 657316002278 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 657316002279 NlpC/P60 family; Region: NLPC_P60; pfam00877 657316002280 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 657316002281 nucleotide binding site [chemical binding]; other site 657316002282 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 657316002283 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 657316002284 substrate binding site [polypeptide binding]; other site 657316002285 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 657316002286 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 657316002287 Zn binding sites [ion binding]; other site 657316002288 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 657316002289 dimer interface [polypeptide binding]; other site 657316002290 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 657316002291 polysaccharide pyruvyl transferase CsaB; Region: S_layer_CsaB; TIGR03609 657316002292 This domain is found in peptide chain release factors; Region: PCRF; smart00937 657316002293 RF-1 domain; Region: RF-1; pfam00472 657316002294 peptide chain release factor 2; Validated; Region: prfB; PRK00578 657316002295 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 657316002296 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 657316002297 nucleotide binding region [chemical binding]; other site 657316002298 ATP-binding site [chemical binding]; other site 657316002299 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 657316002300 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 657316002301 30S subunit binding site; other site 657316002302 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 657316002303 SEC-C motif; Region: SEC-C; pfam02810 657316002304 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 657316002305 active site 657316002306 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 657316002307 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 657316002308 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657316002309 Walker A/P-loop; other site 657316002310 ATP binding site [chemical binding]; other site 657316002311 Q-loop/lid; other site 657316002312 ABC transporter signature motif; other site 657316002313 Walker B; other site 657316002314 D-loop; other site 657316002315 H-loop/switch region; other site 657316002316 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 657316002317 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 657316002318 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 657316002319 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 657316002320 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 657316002321 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 657316002322 Catalytic dyad [active] 657316002323 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 657316002324 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 657316002325 G1 box; other site 657316002326 putative GEF interaction site [polypeptide binding]; other site 657316002327 GTP/Mg2+ binding site [chemical binding]; other site 657316002328 Switch I region; other site 657316002329 G2 box; other site 657316002330 G3 box; other site 657316002331 Switch II region; other site 657316002332 G4 box; other site 657316002333 G5 box; other site 657316002334 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 657316002335 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 657316002336 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 657316002337 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 657316002338 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 657316002339 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 657316002340 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 657316002341 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 657316002342 DNA binding residues [nucleotide binding] 657316002343 dimer interface [polypeptide binding]; other site 657316002344 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 657316002345 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 657316002346 CPxP motif; other site 657316002347 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 657316002348 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 657316002349 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 657316002350 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657316002351 catalytic residue [active] 657316002352 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 657316002353 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657316002354 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657316002355 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 657316002356 dimerization interface [polypeptide binding]; other site 657316002357 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 657316002358 Predicted membrane protein [Function unknown]; Region: COG3601 657316002359 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 657316002360 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 657316002361 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 657316002362 Uncharacterized conserved protein [Function unknown]; Region: COG2966 657316002363 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 657316002364 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 657316002365 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 657316002366 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; cl00514 657316002367 dimer interface [polypeptide binding]; other site 657316002368 membrane ATPase/protein kinase; Provisional; Region: PRK09435 657316002369 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 657316002370 Walker A; other site 657316002371 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 657316002372 B12 binding site [chemical binding]; other site 657316002373 cobalt ligand [ion binding]; other site 657316002374 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 657316002375 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 657316002376 active site 657316002377 substrate binding site [chemical binding]; other site 657316002378 coenzyme B12 binding site [chemical binding]; other site 657316002379 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 657316002380 heterodimer interface [polypeptide binding]; other site 657316002381 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 657316002382 B12 binding site [chemical binding]; other site 657316002383 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 657316002384 Domain of unknown function (DUF386); Region: DUF386; cl01047 657316002385 excinuclease ABC subunit B; Provisional; Region: PRK05298 657316002386 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 657316002387 ATP binding site [chemical binding]; other site 657316002388 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 657316002389 nucleotide binding region [chemical binding]; other site 657316002390 ATP-binding site [chemical binding]; other site 657316002391 Ultra-violet resistance protein B; Region: UvrB; pfam12344 657316002392 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 657316002393 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 657316002394 Walker A/P-loop; other site 657316002395 ATP binding site [chemical binding]; other site 657316002396 Q-loop/lid; other site 657316002397 ABC transporter signature motif; other site 657316002398 Walker B; other site 657316002399 D-loop; other site 657316002400 H-loop/switch region; other site 657316002401 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 657316002402 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 657316002403 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 657316002404 Walker A/P-loop; other site 657316002405 ATP binding site [chemical binding]; other site 657316002406 Q-loop/lid; other site 657316002407 ABC transporter signature motif; other site 657316002408 Walker B; other site 657316002409 D-loop; other site 657316002410 H-loop/switch region; other site 657316002411 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 657316002412 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 657316002413 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 657316002414 dimer interface [polypeptide binding]; other site 657316002415 conserved gate region; other site 657316002416 putative PBP binding loops; other site 657316002417 ABC-ATPase subunit interface; other site 657316002418 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 657316002419 Pyruvate-formate lyase [Energy production and conversion]; Region: PflD; COG1882 657316002420 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 657316002421 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 657316002422 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 657316002423 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 657316002424 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 657316002425 pyruvate formate lyase II activase; Provisional; Region: PRK10076 657316002426 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 657316002427 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 657316002428 putative DNA binding site [nucleotide binding]; other site 657316002429 putative Zn2+ binding site [ion binding]; other site 657316002430 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 657316002431 competence damage-inducible protein A; Provisional; Region: PRK00549 657316002432 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 657316002433 putative MPT binding site; other site 657316002434 Competence-damaged protein; Region: CinA; pfam02464 657316002435 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 657316002436 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 657316002437 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 657316002438 FeS/SAM binding site; other site 657316002439 TRAM domain; Region: TRAM; cl01282 657316002440 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 657316002441 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 657316002442 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 657316002443 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 657316002444 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 657316002445 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 657316002446 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657316002447 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 657316002448 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 657316002449 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 657316002450 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657316002451 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657316002452 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 657316002453 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 657316002454 active site 657316002455 homodimer interface [polypeptide binding]; other site 657316002456 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 657316002457 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657316002458 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657316002459 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 657316002460 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 657316002461 Mg++ binding site [ion binding]; other site 657316002462 putative catalytic motif [active] 657316002463 putative substrate binding site [chemical binding]; other site 657316002464 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 657316002465 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657316002466 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657316002467 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 657316002468 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 657316002469 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 657316002470 putative active site [active] 657316002471 putative metal binding site [ion binding]; other site 657316002472 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 657316002473 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 657316002474 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 657316002475 putative deacylase active site [active] 657316002476 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 657316002477 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 657316002478 putative deacylase active site [active] 657316002479 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 657316002480 active site 657316002481 motif 3; other site 657316002482 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 657316002483 anticodon binding site; other site 657316002484 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 657316002485 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 657316002486 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 657316002487 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 657316002488 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 657316002489 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 657316002490 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 657316002491 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 657316002492 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 657316002493 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 657316002494 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 657316002495 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 657316002496 putative FPP binding hydrophobic cleft; other site 657316002497 dimer interface [polypeptide binding]; other site 657316002498 putative IPP diphosphate binding site; other site 657316002499 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 657316002500 ribosome recycling factor; Reviewed; Region: frr; PRK00083 657316002501 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 657316002502 hinge region; other site 657316002503 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 657316002504 uridine monophosphate binding site [chemical binding]; other site 657316002505 homohexameric interface [polypeptide binding]; other site 657316002506 putative nucleotide binding site [chemical binding]; other site 657316002507 elongation factor Ts; Reviewed; Region: tsf; PRK12332 657316002508 Elongation factor TS; Region: EF_TS; pfam00889 657316002509 elongation factor Ts; Provisional; Region: tsf; PRK09377 657316002510 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 657316002511 rRNA interaction site [nucleotide binding]; other site 657316002512 S8 interaction site; other site 657316002513 putative laminin-1 binding site; other site 657316002514 transcriptional repressor CodY; Validated; Region: PRK04158 657316002515 CodY GAF-like domain; Region: CodY; pfam06018 657316002516 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 657316002517 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 657316002518 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 657316002519 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 657316002520 Walker A motif; other site 657316002521 ATP binding site [chemical binding]; other site 657316002522 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 657316002523 active site 657316002524 HslU subunit interaction site [polypeptide binding]; other site 657316002525 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 657316002526 active site 657316002527 metal binding site [ion binding]; metal-binding site 657316002528 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 657316002529 domain I; other site 657316002530 DNA binding groove [nucleotide binding] 657316002531 phosphate binding site [ion binding]; other site 657316002532 domain II; other site 657316002533 domain III; other site 657316002534 nucleotide binding site [chemical binding]; other site 657316002535 catalytic site [active] 657316002536 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 657316002537 active site 657316002538 metal binding site [ion binding]; metal-binding site 657316002539 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 657316002540 DNA protecting protein DprA; Region: dprA; TIGR00732 657316002541 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 657316002542 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 657316002543 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 657316002544 Amidase; Region: Amidase; cl11426 657316002545 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 657316002546 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 657316002547 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 657316002548 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 657316002549 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 657316002550 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 657316002551 dimerization interface [polypeptide binding]; other site 657316002552 domain crossover interface; other site 657316002553 redox-dependent activation switch; other site 657316002554 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 657316002555 Family description; Region: UvrD_C_2; pfam13538 657316002556 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 657316002557 FAD binding domain; Region: FAD_binding_4; pfam01565 657316002558 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 657316002559 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 657316002560 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 657316002561 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 657316002562 Electron transfer flavoprotein domain; Region: ETF; pfam01012 657316002563 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 657316002564 Ligand binding site [chemical binding]; other site 657316002565 Electron transfer flavoprotein domain; Region: ETF; pfam01012 657316002566 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 657316002567 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 657316002568 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 657316002569 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 657316002570 Cysteine-rich domain; Region: CCG; pfam02754 657316002571 Cysteine-rich domain; Region: CCG; pfam02754 657316002572 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 657316002573 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 657316002574 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 657316002575 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 657316002576 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 657316002577 Ligand Binding Site [chemical binding]; other site 657316002578 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 657316002579 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 657316002580 dimer interface [polypeptide binding]; other site 657316002581 conserved gate region; other site 657316002582 putative PBP binding loops; other site 657316002583 ABC-ATPase subunit interface; other site 657316002584 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 657316002585 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 657316002586 ABC-ATPase subunit interface; other site 657316002587 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 657316002588 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 657316002589 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 657316002590 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 657316002591 Walker A/P-loop; other site 657316002592 ATP binding site [chemical binding]; other site 657316002593 Q-loop/lid; other site 657316002594 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 657316002595 Sulfatase; Region: Sulfatase; cl17466 657316002596 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 657316002597 Sulfatase; Region: Sulfatase; cl17466 657316002598 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 657316002599 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 657316002600 substrate binding site [chemical binding]; other site 657316002601 hexamer interface [polypeptide binding]; other site 657316002602 metal binding site [ion binding]; metal-binding site 657316002603 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 657316002604 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 657316002605 TPP-binding site [chemical binding]; other site 657316002606 dimer interface [polypeptide binding]; other site 657316002607 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 657316002608 PYR/PP interface [polypeptide binding]; other site 657316002609 dimer interface [polypeptide binding]; other site 657316002610 TPP binding site [chemical binding]; other site 657316002611 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 657316002612 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 657316002613 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 657316002614 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 657316002615 active site 657316002616 P-loop; other site 657316002617 phosphorylation site [posttranslational modification] 657316002618 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 657316002619 active site 657316002620 phosphorylation site [posttranslational modification] 657316002621 PRD domain; Region: PRD; pfam00874 657316002622 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 657316002623 active site 657316002624 P-loop; other site 657316002625 phosphorylation site [posttranslational modification] 657316002626 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 657316002627 active site 657316002628 phosphorylation site [posttranslational modification] 657316002629 HTH domain; Region: HTH_11; pfam08279 657316002630 Mga helix-turn-helix domain; Region: Mga; pfam05043 657316002631 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 657316002632 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 657316002633 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 657316002634 metal binding site [ion binding]; metal-binding site 657316002635 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 657316002636 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 657316002637 substrate binding site [chemical binding]; other site 657316002638 glutamase interaction surface [polypeptide binding]; other site 657316002639 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 657316002640 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 657316002641 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 657316002642 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 657316002643 conserved cys residue [active] 657316002644 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 657316002645 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 657316002646 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 657316002647 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 657316002648 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 657316002649 dimer interface [polypeptide binding]; other site 657316002650 motif 1; other site 657316002651 active site 657316002652 motif 2; other site 657316002653 motif 3; other site 657316002654 Trp repressor protein; Region: Trp_repressor; cl17266 657316002655 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 657316002656 non-specific DNA interactions [nucleotide binding]; other site 657316002657 DNA binding site [nucleotide binding] 657316002658 sequence specific DNA binding site [nucleotide binding]; other site 657316002659 putative cAMP binding site [chemical binding]; other site 657316002660 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 657316002661 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; pfam03608 657316002662 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 657316002663 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 657316002664 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 657316002665 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 657316002666 sorbitol-6-phosphate 2-dehydrogenase; Provisional; Region: PRK06171 657316002667 classical (c) SDRs; Region: SDR_c; cd05233 657316002668 NAD(P) binding site [chemical binding]; other site 657316002669 active site 657316002670 BioY family; Region: BioY; pfam02632 657316002671 AAA domain; Region: AAA_26; pfam13500 657316002672 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 657316002673 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 657316002674 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 657316002675 inhibitor-cofactor binding pocket; inhibition site 657316002676 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316002677 catalytic residue [active] 657316002678 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 657316002679 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 657316002680 N-terminal plug; other site 657316002681 ligand-binding site [chemical binding]; other site 657316002682 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 657316002683 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 657316002684 putative active site [active] 657316002685 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 657316002686 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 657316002687 active site turn [active] 657316002688 phosphorylation site [posttranslational modification] 657316002689 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 657316002690 Uncharacterized conserved protein [Function unknown]; Region: COG3589 657316002691 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 657316002692 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 657316002693 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 657316002694 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316002695 homodimer interface [polypeptide binding]; other site 657316002696 catalytic residue [active] 657316002697 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 657316002698 23S rRNA binding site [nucleotide binding]; other site 657316002699 L21 binding site [polypeptide binding]; other site 657316002700 L13 binding site [polypeptide binding]; other site 657316002701 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 657316002702 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 657316002703 phosphate binding site [ion binding]; other site 657316002704 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 657316002705 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 657316002706 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 657316002707 active site 657316002708 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 657316002709 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 657316002710 active site 657316002711 dimer interface [polypeptide binding]; other site 657316002712 motif 1; other site 657316002713 motif 2; other site 657316002714 motif 3; other site 657316002715 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 657316002716 anticodon binding site; other site 657316002717 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 657316002718 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 657316002719 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 657316002720 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 657316002721 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 657316002722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316002723 homodimer interface [polypeptide binding]; other site 657316002724 catalytic residue [active] 657316002725 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 657316002726 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 657316002727 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 657316002728 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 657316002729 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 657316002730 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 657316002731 Protein of unknown function (DUF445); Region: DUF445; pfam04286 657316002732 Protein of unknown function (DUF445); Region: DUF445; pfam04286 657316002733 Predicted membrane protein [Function unknown]; Region: COG2733 657316002734 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 657316002735 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 657316002736 NAD(P) binding pocket [chemical binding]; other site 657316002737 agmatinase; Region: agmatinase; TIGR01230 657316002738 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 657316002739 putative active site [active] 657316002740 Mn binding site [ion binding]; other site 657316002741 spermidine synthase; Provisional; Region: PRK00811 657316002742 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 657316002743 S-adenosylmethionine binding site [chemical binding]; other site 657316002744 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 657316002745 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 657316002746 homodimer interface [polypeptide binding]; other site 657316002747 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316002748 catalytic residue [active] 657316002749 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 657316002750 Uncharacterized conserved protein [Function unknown]; Region: COG1284 657316002751 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657316002752 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 657316002753 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 657316002754 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 657316002755 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 657316002756 NAD synthetase; Provisional; Region: PRK13981 657316002757 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 657316002758 multimer interface [polypeptide binding]; other site 657316002759 active site 657316002760 catalytic triad [active] 657316002761 protein interface 1 [polypeptide binding]; other site 657316002762 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 657316002763 Ligand Binding Site [chemical binding]; other site 657316002764 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 657316002765 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 657316002766 S-adenosylmethionine binding site [chemical binding]; other site 657316002767 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 657316002768 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 657316002769 active site 657316002770 (T/H)XGH motif; other site 657316002771 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 657316002772 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 657316002773 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 657316002774 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 657316002775 Ligand Binding Site [chemical binding]; other site 657316002776 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 657316002777 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 657316002778 trimer interface [polypeptide binding]; other site 657316002779 putative metal binding site [ion binding]; other site 657316002780 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 657316002781 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cl02206 657316002782 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 657316002783 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 657316002784 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 657316002785 DNA binding residues [nucleotide binding] 657316002786 putative dimer interface [polypeptide binding]; other site 657316002787 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657316002788 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657316002789 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 657316002790 dimerization interface [polypeptide binding]; other site 657316002791 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 657316002792 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 657316002793 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 657316002794 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 657316002795 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 657316002796 CRISPR-associated endonuclease Cas3-HD; Region: cas3_HD; TIGR01596 657316002797 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 657316002798 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 657316002799 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 657316002800 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 657316002801 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 657316002802 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 657316002803 putative RNA binding site [nucleotide binding]; other site 657316002804 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 657316002805 S-adenosylmethionine binding site [chemical binding]; other site 657316002806 Methyltransferase domain; Region: Methyltransf_23; pfam13489 657316002807 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 657316002808 S-adenosylmethionine binding site [chemical binding]; other site 657316002809 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 657316002810 S-adenosylmethionine binding site [chemical binding]; other site 657316002811 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 657316002812 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 657316002813 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 657316002814 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 657316002815 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 657316002816 dimer interface [polypeptide binding]; other site 657316002817 conserved gate region; other site 657316002818 putative PBP binding loops; other site 657316002819 ABC-ATPase subunit interface; other site 657316002820 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 657316002821 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 657316002822 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 657316002823 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 657316002824 ATP binding site [chemical binding]; other site 657316002825 Q-loop/lid; other site 657316002826 ABC transporter signature motif; other site 657316002827 Walker B; other site 657316002828 D-loop; other site 657316002829 H-loop/switch region; other site 657316002830 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 657316002831 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657316002832 Walker A/P-loop; other site 657316002833 ATP binding site [chemical binding]; other site 657316002834 Q-loop/lid; other site 657316002835 ABC transporter signature motif; other site 657316002836 Walker B; other site 657316002837 D-loop; other site 657316002838 H-loop/switch region; other site 657316002839 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 657316002840 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 657316002841 dimer interface [polypeptide binding]; other site 657316002842 active site 657316002843 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 657316002844 dimer interface [polypeptide binding]; other site 657316002845 active site 657316002846 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 657316002847 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 657316002848 active site 657316002849 substrate binding site [chemical binding]; other site 657316002850 metal binding site [ion binding]; metal-binding site 657316002851 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 657316002852 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 657316002853 YbbR-like protein; Region: YbbR; pfam07949 657316002854 YbbR-like protein; Region: YbbR; pfam07949 657316002855 Uncharacterized conserved protein [Function unknown]; Region: COG1624 657316002856 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 657316002857 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 657316002858 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 657316002859 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 657316002860 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 657316002861 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 657316002862 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 657316002863 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 657316002864 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 657316002865 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 657316002866 Walker A motif; other site 657316002867 ATP binding site [chemical binding]; other site 657316002868 Walker B motif; other site 657316002869 Type II/IV secretion system protein; Region: T2SE; pfam00437 657316002870 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 657316002871 Walker A motif; other site 657316002872 ATP binding site [chemical binding]; other site 657316002873 Walker B motif; other site 657316002874 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 657316002875 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 657316002876 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 657316002877 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 657316002878 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 657316002879 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 657316002880 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 657316002881 hypothetical protein; Reviewed; Region: PRK12497 657316002882 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 657316002883 RNA/DNA hybrid binding site [nucleotide binding]; other site 657316002884 active site 657316002885 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 657316002886 active site 657316002887 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 657316002888 intersubunit interface [polypeptide binding]; other site 657316002889 active site 657316002890 zinc binding site [ion binding]; other site 657316002891 Na+ binding site [ion binding]; other site 657316002892 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 657316002893 GMP synthase; Reviewed; Region: guaA; PRK00074 657316002894 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 657316002895 ATP Binding subdomain [chemical binding]; other site 657316002896 Ligand Binding sites [chemical binding]; other site 657316002897 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 657316002898 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 657316002899 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 657316002900 Ca binding site [ion binding]; other site 657316002901 active site 657316002902 catalytic site [active] 657316002903 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657316002904 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657316002905 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657316002906 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 657316002907 Melibiase; Region: Melibiase; pfam02065 657316002908 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 657316002909 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657316002910 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 657316002911 Predicted membrane protein [Function unknown]; Region: COG2364 657316002912 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657316002913 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657316002914 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657316002915 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 657316002916 dimerization interface [polypeptide binding]; other site 657316002917 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 657316002918 Na2 binding site [ion binding]; other site 657316002919 putative substrate binding site 1 [chemical binding]; other site 657316002920 Na binding site 1 [ion binding]; other site 657316002921 putative substrate binding site 2 [chemical binding]; other site 657316002922 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657316002923 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 657316002924 putative substrate translocation pore; other site 657316002925 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657316002926 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657316002927 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 657316002928 dimerization interface [polypeptide binding]; other site 657316002929 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 657316002930 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 657316002931 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 657316002932 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 657316002933 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 657316002934 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 657316002935 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 657316002936 ssDNA binding site; other site 657316002937 generic binding surface II; other site 657316002938 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 657316002939 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 657316002940 Uncharacterized conserved protein [Function unknown]; Region: COG1284 657316002941 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657316002942 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 657316002943 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 657316002944 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 657316002945 dimer interface [polypeptide binding]; other site 657316002946 anticodon binding site; other site 657316002947 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 657316002948 homodimer interface [polypeptide binding]; other site 657316002949 motif 1; other site 657316002950 active site 657316002951 motif 2; other site 657316002952 GAD domain; Region: GAD; pfam02938 657316002953 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 657316002954 motif 3; other site 657316002955 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 657316002956 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 657316002957 dimer interface [polypeptide binding]; other site 657316002958 motif 1; other site 657316002959 active site 657316002960 motif 2; other site 657316002961 motif 3; other site 657316002962 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 657316002963 anticodon binding site; other site 657316002964 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 657316002965 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 657316002966 homodimer interface [polypeptide binding]; other site 657316002967 substrate-cofactor binding pocket; other site 657316002968 catalytic residue [active] 657316002969 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657316002970 active site 657316002971 AMP binding site [chemical binding]; other site 657316002972 acyl-activating enzyme (AAE) consensus motif; other site 657316002973 CoA binding site [chemical binding]; other site 657316002974 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 657316002975 BioY family; Region: BioY; pfam02632 657316002976 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 657316002977 Protein of unknown function (DUF464); Region: DUF464; pfam04327 657316002978 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 657316002979 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 657316002980 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 657316002981 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 657316002982 The link domain is a hyaluronan (HA)-binding domain. It functions to mediate adhesive interactions during inflammatory leukocyte homing and tumor metastasis. It is found in the CD44 receptor and in human TSG-6. TSG-6 is the protein product of the tumor...; Region: Link_Domain; cl02612 657316002983 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 657316002984 ribonuclease III; Reviewed; Region: rnc; PRK00102 657316002985 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 657316002986 dimerization interface [polypeptide binding]; other site 657316002987 active site 657316002988 metal binding site [ion binding]; metal-binding site 657316002989 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 657316002990 dsRNA binding site [nucleotide binding]; other site 657316002991 acyl carrier protein; Provisional; Region: acpP; PRK00982 657316002992 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 657316002993 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 657316002994 NAD(P) binding site [chemical binding]; other site 657316002995 homotetramer interface [polypeptide binding]; other site 657316002996 homodimer interface [polypeptide binding]; other site 657316002997 active site 657316002998 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 657316002999 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 657316003000 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 657316003001 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 657316003002 FMN binding site [chemical binding]; other site 657316003003 substrate binding site [chemical binding]; other site 657316003004 putative catalytic residue [active] 657316003005 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 657316003006 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 657316003007 dimer interface [polypeptide binding]; other site 657316003008 active site 657316003009 CoA binding pocket [chemical binding]; other site 657316003010 Fatty acid synthesis protein; Region: FA_synthesis; cl17261 657316003011 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 657316003012 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 657316003013 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; cd03440 657316003014 active site 2 [active] 657316003015 active site 1 [active] 657316003016 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 657316003017 Predicted nucleotidyltransferase [General function prediction only]; Region: COG1323 657316003018 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 657316003019 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 657316003020 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657316003021 active site 657316003022 metal binding site [ion binding]; metal-binding site 657316003023 homotetramer interface [polypeptide binding]; other site 657316003024 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 657316003025 active site 657316003026 intersubunit interactions; other site 657316003027 catalytic residue [active] 657316003028 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 657316003029 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 657316003030 Pyruvate formate lyase; Region: PFL; pfam02901 657316003031 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 657316003032 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 657316003033 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 657316003034 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 657316003035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 657316003036 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 657316003037 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 657316003038 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 657316003039 homopentamer interface [polypeptide binding]; other site 657316003040 active site 657316003041 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 657316003042 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 657316003043 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 657316003044 dimerization interface [polypeptide binding]; other site 657316003045 active site 657316003046 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 657316003047 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 657316003048 catalytic motif [active] 657316003049 Zn binding site [ion binding]; other site 657316003050 RibD C-terminal domain; Region: RibD_C; cl17279 657316003051 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 657316003052 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 657316003053 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 657316003054 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 657316003055 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 657316003056 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 657316003057 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 657316003058 Potassium binding sites [ion binding]; other site 657316003059 Cesium cation binding sites [ion binding]; other site 657316003060 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 657316003061 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 657316003062 putative substrate translocation pore; other site 657316003063 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 657316003064 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 657316003065 putative substrate translocation pore; other site 657316003066 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 657316003067 activation loop (A-loop); other site 657316003068 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 657316003069 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 657316003070 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 657316003071 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 657316003072 dimer interface [polypeptide binding]; other site 657316003073 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316003074 catalytic residue [active] 657316003075 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 657316003076 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 657316003077 homodimer interface [polypeptide binding]; other site 657316003078 substrate-cofactor binding pocket; other site 657316003079 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316003080 catalytic residue [active] 657316003081 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 657316003082 classical (c) SDRs; Region: SDR_c; cd05233 657316003083 NAD(P) binding site [chemical binding]; other site 657316003084 active site 657316003085 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 657316003086 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 657316003087 putative SAM binding site [chemical binding]; other site 657316003088 putative homodimer interface [polypeptide binding]; other site 657316003089 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 657316003090 homodimer interface [polypeptide binding]; other site 657316003091 metal binding site [ion binding]; metal-binding site 657316003092 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 657316003093 homodimer interface [polypeptide binding]; other site 657316003094 active site 657316003095 putative chemical substrate binding site [chemical binding]; other site 657316003096 metal binding site [ion binding]; metal-binding site 657316003097 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 657316003098 nucleotide binding region [chemical binding]; other site 657316003099 ATP-binding site [chemical binding]; other site 657316003100 TRCF domain; Region: TRCF; pfam03461 657316003101 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 657316003102 CTP synthetase; Validated; Region: pyrG; PRK05380 657316003103 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 657316003104 Catalytic site [active] 657316003105 active site 657316003106 UTP binding site [chemical binding]; other site 657316003107 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 657316003108 active site 657316003109 putative oxyanion hole; other site 657316003110 catalytic triad [active] 657316003111 DNA-directed RNA polymerase subunit delta; Reviewed; Region: PRK02363 657316003112 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 657316003113 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 657316003114 KMSK motif region; other site 657316003115 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 657316003116 tRNA binding surface [nucleotide binding]; other site 657316003117 anticodon binding site; other site 657316003118 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 657316003119 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657316003120 active site 657316003121 HIGH motif; other site 657316003122 nucleotide binding site [chemical binding]; other site 657316003123 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 657316003124 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 657316003125 intersubunit interface [polypeptide binding]; other site 657316003126 active site 657316003127 catalytic residue [active] 657316003128 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 657316003129 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 657316003130 Nucleoside recognition; Region: Gate; pfam07670 657316003131 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 657316003132 phosphopentomutase; Provisional; Region: PRK05362 657316003133 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 657316003134 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 657316003135 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 657316003136 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 657316003137 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 657316003138 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 657316003139 decamer (pentamer of dimers) interface [polypeptide binding]; other site 657316003140 catalytic triad [active] 657316003141 dimer interface [polypeptide binding]; other site 657316003142 peroxidatic and resolving cysteines [active] 657316003143 deoxyribose mutarotase_like; Region: deoxyribose_mutarotase; cd09269 657316003144 active site 657316003145 catalytic residues [active] 657316003146 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 657316003147 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 657316003148 putative substrate translocation pore; other site 657316003149 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 657316003150 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 657316003151 active site 657316003152 catalytic residues [active] 657316003153 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 657316003154 intersubunit interface [polypeptide binding]; other site 657316003155 active site 657316003156 catalytic residue [active] 657316003157 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 657316003158 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 657316003159 non-specific DNA interactions [nucleotide binding]; other site 657316003160 DNA binding site [nucleotide binding] 657316003161 sequence specific DNA binding site [nucleotide binding]; other site 657316003162 putative cAMP binding site [chemical binding]; other site 657316003163 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 657316003164 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 657316003165 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 657316003166 23S rRNA interface [nucleotide binding]; other site 657316003167 L3 interface [polypeptide binding]; other site 657316003168 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657316003169 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657316003170 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 657316003171 dimerization interface [polypeptide binding]; other site 657316003172 Predicted membrane protein [Function unknown]; Region: COG2860 657316003173 UPF0126 domain; Region: UPF0126; pfam03458 657316003174 UPF0126 domain; Region: UPF0126; pfam03458 657316003175 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 657316003176 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657316003177 active site 657316003178 metal binding site [ion binding]; metal-binding site 657316003179 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 657316003180 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 657316003181 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cl00723 657316003182 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cl00723 657316003183 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 657316003184 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 657316003185 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 657316003186 Double zinc ribbon; Region: DZR; pfam12773 657316003187 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 657316003188 active site 657316003189 putative catalytic site [active] 657316003190 AP binding site [nucleotide binding]; other site 657316003191 DNA binding site [nucleotide binding] 657316003192 putative phosphate binding site [ion binding]; other site 657316003193 metal binding site B [ion binding]; metal-binding site 657316003194 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 657316003195 putative metal binding site [ion binding]; other site 657316003196 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 657316003197 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 657316003198 S-adenosylmethionine binding site [chemical binding]; other site 657316003199 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 657316003200 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 657316003201 putative active site [active] 657316003202 putative metal binding site [ion binding]; other site 657316003203 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 657316003204 Domain of unknown function (DUF348); Region: DUF348; pfam03990 657316003205 G5 domain; Region: G5; pfam07501 657316003206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 657316003207 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 657316003208 active site 657316003209 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 657316003210 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 657316003211 dimer interface [polypeptide binding]; other site 657316003212 putative tRNA-binding site [nucleotide binding]; other site 657316003213 Predicted methyltransferases [General function prediction only]; Region: COG0313 657316003214 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 657316003215 putative SAM binding site [chemical binding]; other site 657316003216 putative homodimer interface [polypeptide binding]; other site 657316003217 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 657316003218 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 657316003219 S-adenosylmethionine binding site [chemical binding]; other site 657316003220 PSP1 C-terminal conserved region; Region: PSP1; cl00770 657316003221 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 657316003222 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 657316003223 Walker A motif; other site 657316003224 ATP binding site [chemical binding]; other site 657316003225 Walker B motif; other site 657316003226 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 657316003227 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 657316003228 TMP-binding site; other site 657316003229 ATP-binding site [chemical binding]; other site 657316003230 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 657316003231 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 657316003232 homodimer interface [polypeptide binding]; other site 657316003233 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316003234 catalytic residue [active] 657316003235 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 657316003236 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 657316003237 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 657316003238 dimer interface [polypeptide binding]; other site 657316003239 active site 657316003240 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657316003241 catalytic residues [active] 657316003242 substrate binding site [chemical binding]; other site 657316003243 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 657316003244 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 657316003245 TPP-binding site [chemical binding]; other site 657316003246 dimer interface [polypeptide binding]; other site 657316003247 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 657316003248 PYR/PP interface [polypeptide binding]; other site 657316003249 dimer interface [polypeptide binding]; other site 657316003250 TPP binding site [chemical binding]; other site 657316003251 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657316003252 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 657316003253 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 657316003254 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 657316003255 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 657316003256 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 657316003257 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 657316003258 Glucitol operon activator protein (GutM); Region: GutM; cl01890 657316003259 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; cl17320 657316003260 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 657316003261 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 657316003262 triosephosphate isomerase; Provisional; Region: PRK04302 657316003263 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 657316003264 intersubunit interface [polypeptide binding]; other site 657316003265 active site 657316003266 zinc binding site [ion binding]; other site 657316003267 Na+ binding site [ion binding]; other site 657316003268 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 657316003269 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 657316003270 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 657316003271 RPB1 interaction site [polypeptide binding]; other site 657316003272 RPB10 interaction site [polypeptide binding]; other site 657316003273 RPB11 interaction site [polypeptide binding]; other site 657316003274 RPB3 interaction site [polypeptide binding]; other site 657316003275 RPB12 interaction site [polypeptide binding]; other site 657316003276 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657316003277 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 657316003278 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 657316003279 substrate binding pocket [chemical binding]; other site 657316003280 membrane-bound complex binding site; other site 657316003281 hinge residues; other site 657316003282 Probable zinc-binding domain; Region: zf-trcl; pfam13451 657316003283 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 657316003284 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657316003285 ABC transporter; Region: ABC_tran_2; pfam12848 657316003286 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 657316003287 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657316003288 ABC transporter; Region: ABC_tran_2; pfam12848 657316003289 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 657316003290 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 657316003291 AAA domain; Region: AAA_30; pfam13604 657316003292 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 657316003293 SLBB domain; Region: SLBB; pfam10531 657316003294 comEA protein; Region: comE; TIGR01259 657316003295 Helix-hairpin-helix motif; Region: HHH; pfam00633 657316003296 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 657316003297 Competence protein; Region: Competence; pfam03772 657316003298 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 657316003299 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 657316003300 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 657316003301 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 657316003302 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 657316003303 active site 657316003304 catalytic triad [active] 657316003305 oxyanion hole [active] 657316003306 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 657316003307 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 657316003308 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 657316003309 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 657316003310 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 657316003311 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 657316003312 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 657316003313 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657316003314 FtsX-like permease family; Region: FtsX; pfam02687 657316003315 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657316003316 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657316003317 Walker A/P-loop; other site 657316003318 ATP binding site [chemical binding]; other site 657316003319 Q-loop/lid; other site 657316003320 ABC transporter signature motif; other site 657316003321 Walker B; other site 657316003322 D-loop; other site 657316003323 H-loop/switch region; other site 657316003324 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 657316003325 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 657316003326 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 657316003327 malate dehydrogenase; Reviewed; Region: PRK06223 657316003328 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 657316003329 NAD(P) binding site [chemical binding]; other site 657316003330 dimer interface [polypeptide binding]; other site 657316003331 tetramer (dimer of dimers) interface [polypeptide binding]; other site 657316003332 substrate binding site [chemical binding]; other site 657316003333 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657316003334 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 657316003335 active site 657316003336 phosphorylation site [posttranslational modification] 657316003337 intermolecular recognition site; other site 657316003338 dimerization interface [polypeptide binding]; other site 657316003339 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; pfam00486 657316003340 DNA binding site [nucleotide binding] 657316003341 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 657316003342 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657316003343 dimer interface [polypeptide binding]; other site 657316003344 phosphorylation site [posttranslational modification] 657316003345 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 657316003346 ATP binding site [chemical binding]; other site 657316003347 Mg2+ binding site [ion binding]; other site 657316003348 G-X-G motif; other site 657316003349 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 657316003350 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 657316003351 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 657316003352 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657316003353 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 657316003354 AMIN domain; Region: AMIN; pfam11741 657316003355 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 657316003356 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 657316003357 active site 657316003358 metal binding site [ion binding]; metal-binding site 657316003359 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 657316003360 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 657316003361 ATP binding site [chemical binding]; other site 657316003362 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 657316003363 substrate interface [chemical binding]; other site 657316003364 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 657316003365 6-phosphofructokinase; Provisional; Region: PRK03202 657316003366 active site 657316003367 ADP/pyrophosphate binding site [chemical binding]; other site 657316003368 allosteric effector site; other site 657316003369 dimerization interface [polypeptide binding]; other site 657316003370 fructose-1,6-bisphosphate binding site; other site 657316003371 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 657316003372 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; cl11986 657316003373 nucleotide binding site [chemical binding]; other site 657316003374 domain II; other site 657316003375 domain IV; other site 657316003376 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 657316003377 Uncharacterized conserved protein [Function unknown]; Region: COG3339 657316003378 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 657316003379 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 657316003380 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 657316003381 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 657316003382 ABC1 family; Region: ABC1; cl17513 657316003383 ABC1 family; Region: ABC1; cl17513 657316003384 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 657316003385 ABC1 family; Region: ABC1; cl17513 657316003386 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cl10037 657316003387 Membrane transport protein; Region: Mem_trans; cl09117 657316003388 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 657316003389 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 657316003390 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 657316003391 putative L-Phe binding site [chemical binding]; other site 657316003392 Prephenate dehydratase; Region: PDT; pfam00800 657316003393 Uncharacterized conserved protein [Function unknown]; Region: COG5495 657316003394 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 657316003395 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 657316003396 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 657316003397 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657316003398 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657316003399 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657316003400 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 657316003401 inner membrane transporter YjeM; Provisional; Region: PRK15238 657316003402 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 657316003403 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 657316003404 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 657316003405 lichenase, member of glycosyl hydrolase family 16; Region: GH16_lichenase; cd02175 657316003406 active site 657316003407 active site 657316003408 catalytic residues [active] 657316003409 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 657316003410 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 657316003411 methionine cluster; other site 657316003412 active site 657316003413 phosphorylation site [posttranslational modification] 657316003414 metal binding site [ion binding]; metal-binding site 657316003415 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 657316003416 active site 657316003417 P-loop; other site 657316003418 phosphorylation site [posttranslational modification] 657316003419 S-layer homology domain; Region: SLH; pfam00395 657316003420 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 657316003421 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 657316003422 Domain of unknown function (DUF362); Region: DUF362; pfam04015 657316003423 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 657316003424 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 657316003425 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 657316003426 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 657316003427 short chain dehydrogenase; Provisional; Region: PRK06940 657316003428 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657316003429 NAD(P) binding site [chemical binding]; other site 657316003430 active site 657316003431 short chain dehydrogenase; Provisional; Region: PRK06940 657316003432 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 657316003433 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 657316003434 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657316003435 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 657316003436 DNA binding residues [nucleotide binding] 657316003437 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 657316003438 AAA domain; Region: AAA_17; pfam13207 657316003439 AAA domain; Region: AAA_33; pfam13671 657316003440 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 657316003441 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 657316003442 dimerization interface 3.5A [polypeptide binding]; other site 657316003443 active site 657316003444 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 657316003445 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 657316003446 ABC transporter; Region: ABC_tran; pfam00005 657316003447 Q-loop/lid; other site 657316003448 ABC transporter signature motif; other site 657316003449 Walker B; other site 657316003450 D-loop; other site 657316003451 H-loop/switch region; other site 657316003452 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 657316003453 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 657316003454 Walker A/P-loop; other site 657316003455 ATP binding site [chemical binding]; other site 657316003456 Q-loop/lid; other site 657316003457 ABC transporter signature motif; other site 657316003458 Walker B; other site 657316003459 D-loop; other site 657316003460 H-loop/switch region; other site 657316003461 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 657316003462 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 657316003463 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 657316003464 alphaNTD - beta interaction site [polypeptide binding]; other site 657316003465 alphaNTD homodimer interface [polypeptide binding]; other site 657316003466 alphaNTD - beta' interaction site [polypeptide binding]; other site 657316003467 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 657316003468 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 657316003469 RNA binding surface [nucleotide binding]; other site 657316003470 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 657316003471 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 657316003472 30S ribosomal protein S13; Region: bact_S13; TIGR03631 657316003473 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 657316003474 rRNA binding site [nucleotide binding]; other site 657316003475 predicted 30S ribosome binding site; other site 657316003476 adenylate kinase; Reviewed; Region: adk; PRK00279 657316003477 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 657316003478 AMP-binding site [chemical binding]; other site 657316003479 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 657316003480 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 657316003481 SecY translocase; Region: SecY; pfam00344 657316003482 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 657316003483 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 657316003484 23S rRNA binding site [nucleotide binding]; other site 657316003485 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 657316003486 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 657316003487 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 657316003488 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 657316003489 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 657316003490 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 657316003491 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 657316003492 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 657316003493 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 657316003494 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 657316003495 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 657316003496 23S rRNA interface [nucleotide binding]; other site 657316003497 putative translocon interaction site; other site 657316003498 signal recognition particle (SRP54) interaction site; other site 657316003499 L23 interface [polypeptide binding]; other site 657316003500 trigger factor interaction site; other site 657316003501 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 657316003502 23S rRNA interface [nucleotide binding]; other site 657316003503 5S rRNA interface [nucleotide binding]; other site 657316003504 putative antibiotic binding site [chemical binding]; other site 657316003505 L25 interface [polypeptide binding]; other site 657316003506 L27 interface [polypeptide binding]; other site 657316003507 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 657316003508 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 657316003509 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 657316003510 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 657316003511 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 657316003512 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 657316003513 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 657316003514 Antibiotic Binding Site [chemical binding]; other site 657316003515 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 657316003516 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 657316003517 G1 box; other site 657316003518 GEF interaction site [polypeptide binding]; other site 657316003519 GTP/Mg2+ binding site [chemical binding]; other site 657316003520 Switch I region; other site 657316003521 G2 box; other site 657316003522 G3 box; other site 657316003523 Switch II region; other site 657316003524 G4 box; other site 657316003525 G5 box; other site 657316003526 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 657316003527 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 657316003528 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 657316003529 S17 interaction site [polypeptide binding]; other site 657316003530 S8 interaction site; other site 657316003531 16S rRNA interaction site [nucleotide binding]; other site 657316003532 streptomycin interaction site [chemical binding]; other site 657316003533 23S rRNA interaction site [nucleotide binding]; other site 657316003534 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 657316003535 putative ribosomal protein L7Ae-like; Provisional; Region: PRK13602 657316003536 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 657316003537 core dimer interface [polypeptide binding]; other site 657316003538 peripheral dimer interface [polypeptide binding]; other site 657316003539 L10 interface [polypeptide binding]; other site 657316003540 L11 interface [polypeptide binding]; other site 657316003541 putative EF-Tu interaction site [polypeptide binding]; other site 657316003542 putative EF-G interaction site [polypeptide binding]; other site 657316003543 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 657316003544 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 657316003545 Ribosomal protein L10 family; composed of the large subunit ribosomal protein called L10 in bacteria, P0 in eukaryotes, and L10e in archaea, as well as uncharacterized P0-like eukaryotic proteins. In all three kingdoms, L10 forms a tight complex with...; Region: Ribosomal_L10_P0; cl00376 657316003546 23S rRNA interface [nucleotide binding]; other site 657316003547 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 657316003548 mRNA/rRNA interface [nucleotide binding]; other site 657316003549 Ribosomal protein L11/L12; Region: RL11; smart00649 657316003550 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 657316003551 putative thiostrepton binding site; other site 657316003552 23S rRNA interface [nucleotide binding]; other site 657316003553 L7/L12 interface [polypeptide binding]; other site 657316003554 L25 interface [polypeptide binding]; other site 657316003555 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 657316003556 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 657316003557 putative homodimer interface [polypeptide binding]; other site 657316003558 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 657316003559 heterodimer interface [polypeptide binding]; other site 657316003560 homodimer interface [polypeptide binding]; other site 657316003561 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 657316003562 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657316003563 Walker A/P-loop; other site 657316003564 ATP binding site [chemical binding]; other site 657316003565 Q-loop/lid; other site 657316003566 ABC transporter signature motif; other site 657316003567 Walker B; other site 657316003568 D-loop; other site 657316003569 H-loop/switch region; other site 657316003570 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 657316003571 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 657316003572 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 657316003573 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 657316003574 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 657316003575 heterotetramer interface [polypeptide binding]; other site 657316003576 active site pocket [active] 657316003577 cleavage site 657316003578 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 657316003579 substrate binding site [chemical binding]; other site 657316003580 nucleotide binding site [chemical binding]; other site 657316003581 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 657316003582 acetylornithine aminotransferase; Provisional; Region: PRK02627 657316003583 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 657316003584 inhibitor-cofactor binding pocket; inhibition site 657316003585 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316003586 catalytic residue [active] 657316003587 ornithine carbamoyltransferase; Provisional; Region: PRK00779 657316003588 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 657316003589 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 657316003590 argininosuccinate synthase; Provisional; Region: PRK13820 657316003591 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 657316003592 ANP binding site [chemical binding]; other site 657316003593 Substrate Binding Site II [chemical binding]; other site 657316003594 Substrate Binding Site I [chemical binding]; other site 657316003595 argininosuccinate lyase; Provisional; Region: PRK00855 657316003596 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 657316003597 active sites [active] 657316003598 tetramer interface [polypeptide binding]; other site 657316003599 Transcriptional regulators [Transcription]; Region: FadR; COG2186 657316003600 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657316003601 DNA-binding site [nucleotide binding]; DNA binding site 657316003602 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 657316003603 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 657316003604 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 657316003605 active site 657316003606 intersubunit interface [polypeptide binding]; other site 657316003607 catalytic residue [active] 657316003608 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 657316003609 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 657316003610 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 657316003611 KduI/IolB family; Region: KduI; cl01508 657316003612 DctM-like transporters; Region: DctM; pfam06808 657316003613 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 657316003614 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 657316003615 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 657316003616 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 657316003617 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657316003618 NAD(P) binding site [chemical binding]; other site 657316003619 active site 657316003620 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657316003621 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 657316003622 C-terminal binding protein (CtBP), D-isomer-specific 2-hydroxyacid dehydrogenases related repressor; Region: CtBP_dh; cd05299 657316003623 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 657316003624 ligand binding site [chemical binding]; other site 657316003625 NAD binding site [chemical binding]; other site 657316003626 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 657316003627 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 657316003628 catalytic loop [active] 657316003629 iron binding site [ion binding]; other site 657316003630 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 657316003631 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 657316003632 4Fe-4S binding domain; Region: Fer4; cl02805 657316003633 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 657316003634 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 657316003635 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 657316003636 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 657316003637 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 657316003638 [FeFe] hydrogenase H-cluster radical SAM maturase HydG; Region: rSAM_HydG; TIGR03955 657316003639 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 657316003640 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 657316003641 G1 box; other site 657316003642 GTP/Mg2+ binding site [chemical binding]; other site 657316003643 Switch I region; other site 657316003644 G2 box; other site 657316003645 Switch II region; other site 657316003646 G3 box; other site 657316003647 G4 box; other site 657316003648 Archaeal protein of unknown function (DUF911); Region: DUF911; pfam06023 657316003649 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657316003650 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 657316003651 Coenzyme A binding pocket [chemical binding]; other site 657316003652 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 657316003653 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657316003654 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657316003655 Cupin domain; Region: Cupin_2; pfam07883 657316003656 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 657316003657 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 657316003658 active site 657316003659 substrate binding site [chemical binding]; other site 657316003660 trimer interface [polypeptide binding]; other site 657316003661 CoA binding site [chemical binding]; other site 657316003662 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 657316003663 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 657316003664 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 657316003665 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 657316003666 homotrimer interface [polypeptide binding]; other site 657316003667 Walker A motif; other site 657316003668 GTP binding site [chemical binding]; other site 657316003669 Walker B motif; other site 657316003670 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 657316003671 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 657316003672 generic binding surface I; other site 657316003673 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 657316003674 PHP domain; Region: PHP; pfam02811 657316003675 active site 657316003676 putative PHP Thumb interface [polypeptide binding]; other site 657316003677 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 657316003678 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 657316003679 DNA primase; Validated; Region: dnaG; PRK05667 657316003680 CHC2 zinc finger; Region: zf-CHC2; pfam01807 657316003681 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 657316003682 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 657316003683 active site 657316003684 metal binding site [ion binding]; metal-binding site 657316003685 interdomain interaction site; other site 657316003686 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 657316003687 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 657316003688 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 657316003689 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657316003690 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 657316003691 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 657316003692 DNA binding residues [nucleotide binding] 657316003693 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657316003694 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 657316003695 DNA-binding site [nucleotide binding]; DNA binding site 657316003696 UTRA domain; Region: UTRA; pfam07702 657316003697 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 657316003698 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 657316003699 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 657316003700 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 657316003701 Na binding site [ion binding]; other site 657316003702 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 657316003703 Divergent PAP2 family; Region: DUF212; pfam02681 657316003704 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 657316003705 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 657316003706 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 657316003707 active site turn [active] 657316003708 phosphorylation site [posttranslational modification] 657316003709 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 657316003710 Family of unknown function (DUF633); Region: DUF633; pfam04816 657316003711 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 657316003712 Uncharacterized conserved protein [Function unknown]; Region: COG0327 657316003713 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 657316003714 Uncharacterized conserved protein [Function unknown]; Region: COG0327 657316003715 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 657316003716 thiamine phosphate binding site [chemical binding]; other site 657316003717 active site 657316003718 pyrophosphate binding site [ion binding]; other site 657316003719 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 657316003720 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 657316003721 active site 657316003722 substrate binding site [chemical binding]; other site 657316003723 trimer interface [polypeptide binding]; other site 657316003724 CoA binding site [chemical binding]; other site 657316003725 Transcriptional regulators [Transcription]; Region: GntR; COG1802 657316003726 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657316003727 DNA-binding site [nucleotide binding]; DNA binding site 657316003728 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 657316003729 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 657316003730 putative substrate translocation pore; other site 657316003731 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657316003732 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 657316003733 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 657316003734 NAD(P) binding site [chemical binding]; other site 657316003735 LDH/MDH dimer interface [polypeptide binding]; other site 657316003736 substrate binding site [chemical binding]; other site 657316003737 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 657316003738 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 657316003739 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 657316003740 dimer interface [polypeptide binding]; other site 657316003741 motif 1; other site 657316003742 active site 657316003743 motif 2; other site 657316003744 motif 3; other site 657316003745 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 657316003746 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 657316003747 putative tRNA-binding site [nucleotide binding]; other site 657316003748 B3/4 domain; Region: B3_4; pfam03483 657316003749 tRNA synthetase B5 domain; Region: B5; pfam03484 657316003750 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 657316003751 dimer interface [polypeptide binding]; other site 657316003752 motif 1; other site 657316003753 motif 3; other site 657316003754 motif 2; other site 657316003755 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 657316003756 Predicted permeases [General function prediction only]; Region: COG0701 657316003757 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 657316003758 dimerization interface [polypeptide binding]; other site 657316003759 putative DNA binding site [nucleotide binding]; other site 657316003760 putative Zn2+ binding site [ion binding]; other site 657316003761 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 657316003762 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 657316003763 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 657316003764 DAK2 domain; Region: Dak2; cl03685 657316003765 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 657316003766 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 657316003767 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 657316003768 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 657316003769 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 657316003770 active site 657316003771 phosphorylation site [posttranslational modification] 657316003772 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 657316003773 active pocket/dimerization site; other site 657316003774 active site 657316003775 phosphorylation site [posttranslational modification] 657316003776 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 657316003777 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 657316003778 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 657316003779 Walker A motif; other site 657316003780 ATP binding site [chemical binding]; other site 657316003781 Walker B motif; other site 657316003782 arginine finger; other site 657316003783 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 657316003784 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 657316003785 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 657316003786 NlpC/P60 family; Region: NLPC_P60; pfam00877 657316003787 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 657316003788 DAK2 domain; Region: Dak2; pfam02734 657316003789 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 657316003790 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 657316003791 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 657316003792 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cl00846 657316003793 putative homodimer interface [polypeptide binding]; other site 657316003794 putative homotetramer interface [polypeptide binding]; other site 657316003795 putative allosteric switch controlling residues; other site 657316003796 putative metal binding site [ion binding]; other site 657316003797 putative homodimer-homodimer interface [polypeptide binding]; other site 657316003798 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 657316003799 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 657316003800 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 657316003801 catalytic triad [active] 657316003802 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 657316003803 Precorrin-8X methylmutase; Region: CbiC; pfam02570 657316003804 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 657316003805 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 657316003806 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 657316003807 active site 657316003808 SAM binding site [chemical binding]; other site 657316003809 homodimer interface [polypeptide binding]; other site 657316003810 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 657316003811 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 657316003812 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 657316003813 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 657316003814 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 657316003815 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 657316003816 active site 657316003817 homodimer interface [polypeptide binding]; other site 657316003818 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 657316003819 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 657316003820 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657316003821 Coenzyme A binding pocket [chemical binding]; other site 657316003822 Heavy-metal-associated domain; Region: HMA; pfam00403 657316003823 metal-binding site [ion binding] 657316003824 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657316003825 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657316003826 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657316003827 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 657316003828 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 657316003829 active site 657316003830 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 657316003831 MPT binding site; other site 657316003832 trimer interface [polypeptide binding]; other site 657316003833 MOSC domain; Region: MOSC; pfam03473 657316003834 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 657316003835 trimer interface [polypeptide binding]; other site 657316003836 dimer interface [polypeptide binding]; other site 657316003837 putative active site [active] 657316003838 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 657316003839 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 657316003840 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 657316003841 XdhC Rossmann domain; Region: XdhC_C; pfam13478 657316003842 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 657316003843 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 657316003844 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 657316003845 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 657316003846 Ligand binding site; other site 657316003847 metal-binding site 657316003848 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 657316003849 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 657316003850 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 657316003851 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657316003852 catalytic residue [active] 657316003853 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 657316003854 CPxP motif; other site 657316003855 DsrE/DsrF-like family; Region: DrsE; pfam02635 657316003856 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 657316003857 dimerization interface [polypeptide binding]; other site 657316003858 putative ATP binding site [chemical binding]; other site 657316003859 xanthine permease; Region: pbuX; TIGR03173 657316003860 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 657316003861 dimer interface [polypeptide binding]; other site 657316003862 putative functional site; other site 657316003863 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 657316003864 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 657316003865 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 657316003866 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657316003867 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 657316003868 putative substrate translocation pore; other site 657316003869 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 657316003870 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657316003871 catalytic residue [active] 657316003872 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 657316003873 hypothetical protein; Provisional; Region: PRK10621 657316003874 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 657316003875 exopolyphosphatase; Region: exo_poly_only; TIGR03706 657316003876 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 657316003877 A new structural DNA glycosylase; Region: AlkD_like; cd06561 657316003878 active site 657316003879 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657316003880 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657316003881 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657316003882 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657316003883 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657316003884 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 657316003885 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657316003886 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 657316003887 potassium/proton antiporter; Reviewed; Region: PRK05326 657316003888 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 657316003889 TrkA-C domain; Region: TrkA_C; pfam02080 657316003890 TrkA-C domain; Region: TrkA_C; pfam02080 657316003891 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 657316003892 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 657316003893 dimer interface [polypeptide binding]; other site 657316003894 active site 657316003895 metal binding site [ion binding]; metal-binding site 657316003896 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 657316003897 putative substrate translocation pore; other site 657316003898 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 657316003899 MarR family; Region: MarR_2; pfam12802 657316003900 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 657316003901 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 657316003902 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 657316003903 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 657316003904 Protein of unknown function (DUF441); Region: DUF441; cl01041 657316003905 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 657316003906 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 657316003907 substrate binding pocket [chemical binding]; other site 657316003908 membrane-bound complex binding site; other site 657316003909 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 657316003910 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 657316003911 membrane-bound complex binding site; other site 657316003912 hinge residues; other site 657316003913 EamA-like transporter family; Region: EamA; pfam00892 657316003914 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 657316003915 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cd00350 657316003916 Rubredoxin; Region: Rubredoxin; pfam00301 657316003917 iron binding site [ion binding]; other site 657316003918 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 657316003919 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 657316003920 ABC transporter; Region: ABC_tran; pfam00005 657316003921 Q-loop/lid; other site 657316003922 ABC transporter signature motif; other site 657316003923 Walker B; other site 657316003924 D-loop; other site 657316003925 H-loop/switch region; other site 657316003926 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 657316003927 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 657316003928 dimer interface [polypeptide binding]; other site 657316003929 conserved gate region; other site 657316003930 ABC-ATPase subunit interface; other site 657316003931 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 657316003932 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 657316003933 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 657316003934 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 657316003935 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 657316003936 active site 657316003937 catalytic site [active] 657316003938 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 657316003939 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 657316003940 Domain of unknown function DUF21; Region: DUF21; pfam01595 657316003941 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 657316003942 Transporter associated domain; Region: CorC_HlyC; smart01091 657316003943 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 657316003944 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 657316003945 transmembrane helices; other site 657316003946 trigger factor; Provisional; Region: tig; PRK01490 657316003947 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 657316003948 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 657316003949 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 657316003950 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 657316003951 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 657316003952 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 657316003953 Walker A motif; other site 657316003954 ATP binding site [chemical binding]; other site 657316003955 Walker B motif; other site 657316003956 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 657316003957 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 657316003958 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 657316003959 G1 box; other site 657316003960 GTP/Mg2+ binding site [chemical binding]; other site 657316003961 Switch I region; other site 657316003962 G2 box; other site 657316003963 G3 box; other site 657316003964 Switch II region; other site 657316003965 G4 box; other site 657316003966 G5 box; other site 657316003967 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 657316003968 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; cl17220 657316003969 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 657316003970 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316003971 homodimer interface [polypeptide binding]; other site 657316003972 catalytic residue [active] 657316003973 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 657316003974 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 657316003975 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 657316003976 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657316003977 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 657316003978 active site 657316003979 phosphorylation site [posttranslational modification] 657316003980 intermolecular recognition site; other site 657316003981 dimerization interface [polypeptide binding]; other site 657316003982 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 657316003983 DNA binding site [nucleotide binding] 657316003984 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 657316003985 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657316003986 active site 657316003987 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 657316003988 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 657316003989 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 657316003990 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 657316003991 Ligand Binding Site [chemical binding]; other site 657316003992 general stress protein 13; Validated; Region: PRK08059 657316003993 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 657316003994 RNA binding site [nucleotide binding]; other site 657316003995 Septum formation initiator; Region: DivIC; pfam04977 657316003996 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 657316003997 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 657316003998 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 657316003999 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 657316004000 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 657316004001 tRNA synthetases class II (A); Region: tRNA-synt_2c; pfam01411 657316004002 motif 1; other site 657316004003 active site 657316004004 motif 2; other site 657316004005 motif 3; other site 657316004006 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 657316004007 DHHA1 domain; Region: DHHA1; pfam02272 657316004008 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 657316004009 Uncharacterized protein family (UPF0081); Region: UPF0081; cl17278 657316004010 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 657316004011 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 657316004012 oligomer interface [polypeptide binding]; other site 657316004013 RNA binding site [nucleotide binding]; other site 657316004014 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 657316004015 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 657316004016 dimerization interface [polypeptide binding]; other site 657316004017 active site 657316004018 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 657316004019 active site 657316004020 metal binding site [ion binding]; metal-binding site 657316004021 homotetramer interface [polypeptide binding]; other site 657316004022 fumarate hydratase; Provisional; Region: PRK06246 657316004023 Fumarase C-terminus; Region: Fumerase_C; cl00795 657316004024 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis...; Region: SQR_TypeB_1_TM; cd03497 657316004025 putative Iron-sulfur protein interface [polypeptide binding]; other site 657316004026 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 657316004027 proximal heme binding site [chemical binding]; other site 657316004028 distal heme binding site [chemical binding]; other site 657316004029 putative dimer interface [polypeptide binding]; other site 657316004030 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 657316004031 L-aspartate oxidase; Provisional; Region: PRK06175 657316004032 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 657316004033 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 657316004034 salt bridge; other site 657316004035 non-specific DNA binding site [nucleotide binding]; other site 657316004036 sequence-specific DNA binding site [nucleotide binding]; other site 657316004037 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 657316004038 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 657316004039 active site 657316004040 putative substrate binding pocket [chemical binding]; other site 657316004041 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 657316004042 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 657316004043 homotetramer interface [polypeptide binding]; other site 657316004044 ligand binding site [chemical binding]; other site 657316004045 catalytic site [active] 657316004046 NAD binding site [chemical binding]; other site 657316004047 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 657316004048 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 657316004049 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 657316004050 FeS/SAM binding site; other site 657316004051 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 657316004052 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 657316004053 DXD motif; other site 657316004054 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 657316004055 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 657316004056 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 657316004057 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 657316004058 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 657316004059 GTP1/OBG; Region: GTP1_OBG; pfam01018 657316004060 gamma-glutamyl kinase; Provisional; Region: PRK05429 657316004061 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 657316004062 nucleotide binding site [chemical binding]; other site 657316004063 homotetrameric interface [polypeptide binding]; other site 657316004064 putative phosphate binding site [ion binding]; other site 657316004065 putative allosteric binding site; other site 657316004066 PUA domain; Region: PUA; pfam01472 657316004067 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 657316004068 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 657316004069 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 657316004070 putative catalytic cysteine [active] 657316004071 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 657316004072 active site 657316004073 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 657316004074 (T/H)XGH motif; other site 657316004075 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 657316004076 Helix-turn-helix domain; Region: HTH_25; pfam13413 657316004077 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 657316004078 ATP cone domain; Region: ATP-cone; pfam03477 657316004079 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 657316004080 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 657316004081 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 657316004082 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657316004083 catalytic residue [active] 657316004084 Protein of unknown function (DUF552); Region: DUF552; pfam04472 657316004085 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 657316004086 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 657316004087 RNA binding surface [nucleotide binding]; other site 657316004088 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 657316004089 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 657316004090 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 657316004091 RNA binding surface [nucleotide binding]; other site 657316004092 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 657316004093 active site 657316004094 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 657316004095 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657316004096 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 657316004097 RNA polymerase factor sigma-70; Validated; Region: PRK08295 657316004098 Maf-like protein; Region: Maf; pfam02545 657316004099 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 657316004100 active site 657316004101 dimer interface [polypeptide binding]; other site 657316004102 hypothetical protein; Reviewed; Region: PRK00024 657316004103 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 657316004104 MPN+ (JAMM) motif; other site 657316004105 Zinc-binding site [ion binding]; other site 657316004106 rod shape-determining protein MreB; Provisional; Region: PRK13927 657316004107 MreB and similar proteins; Region: MreB_like; cd10225 657316004108 nucleotide binding site [chemical binding]; other site 657316004109 Mg binding site [ion binding]; other site 657316004110 putative protofilament interaction site [polypeptide binding]; other site 657316004111 RodZ interaction site [polypeptide binding]; other site 657316004112 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 657316004113 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 657316004114 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 657316004115 Switch I; other site 657316004116 Switch II; other site 657316004117 Septum formation topological specificity factor MinE; Region: MinE; cl00538 657316004118 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 657316004119 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 657316004120 Walker A motif; other site 657316004121 ATP binding site [chemical binding]; other site 657316004122 Walker B motif; other site 657316004123 arginine finger; other site 657316004124 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 657316004125 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 657316004126 Ligand Binding Site [chemical binding]; other site 657316004127 Uncharacterized BCR, COG1636; Region: DUF208; cl17782 657316004128 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657316004129 Coenzyme A binding pocket [chemical binding]; other site 657316004130 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 657316004131 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 657316004132 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 657316004133 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 657316004134 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657316004135 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657316004136 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 657316004137 dimerization interface [polypeptide binding]; other site 657316004138 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 657316004139 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 657316004140 putative ADP-ribose binding site [chemical binding]; other site 657316004141 putative active site [active] 657316004142 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 657316004143 HPr interaction site; other site 657316004144 glycerol kinase (GK) interaction site [polypeptide binding]; other site 657316004145 active site 657316004146 phosphorylation site [posttranslational modification] 657316004147 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 657316004148 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 657316004149 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 657316004150 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 657316004151 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 657316004152 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 657316004153 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 657316004154 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 657316004155 PYR/PP interface [polypeptide binding]; other site 657316004156 dimer interface [polypeptide binding]; other site 657316004157 TPP binding site [chemical binding]; other site 657316004158 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 657316004159 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 657316004160 TPP-binding site [chemical binding]; other site 657316004161 dimer interface [polypeptide binding]; other site 657316004162 ketol-acid reductoisomerase; Provisional; Region: PRK05479 657316004163 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 657316004164 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 657316004165 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 657316004166 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 657316004167 hinge; other site 657316004168 active site 657316004169 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 657316004170 AAA domain; Region: AAA_18; pfam13238 657316004171 CMP-binding site; other site 657316004172 Cytidylate kinase; Region: Cytidylate_kin; pfam02224 657316004173 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 657316004174 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 657316004175 putative acyl-acceptor binding pocket; other site 657316004176 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 657316004177 RNA binding site [nucleotide binding]; other site 657316004178 Protein of unknown function (DUF512); Region: DUF512; pfam04459 657316004179 GTP-binding protein Der; Reviewed; Region: PRK00093 657316004180 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 657316004181 Switch II region; other site 657316004182 G3 box; other site 657316004183 GTP/Mg2+ binding site [chemical binding]; other site 657316004184 G4 box; other site 657316004185 G5 box; other site 657316004186 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 657316004187 G1 box; other site 657316004188 GTP/Mg2+ binding site [chemical binding]; other site 657316004189 Switch I region; other site 657316004190 G2 box; other site 657316004191 G3 box; other site 657316004192 Switch II region; other site 657316004193 G4 box; other site 657316004194 G5 box; other site 657316004195 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 657316004196 hypothetical protein; Provisional; Region: PRK04435 657316004197 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 657316004198 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 657316004199 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 657316004200 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 657316004201 homoserine kinase; Provisional; Region: PRK01212 657316004202 homoserine kinase; Provisional; Region: PRK01212 657316004203 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 657316004204 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 657316004205 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 657316004206 active site 657316004207 NTP binding site [chemical binding]; other site 657316004208 metal binding triad [ion binding]; metal-binding site 657316004209 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 657316004210 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657316004211 Zn2+ binding site [ion binding]; other site 657316004212 Mg2+ binding site [ion binding]; other site 657316004213 exopolyphosphatase; Region: exo_poly_only; TIGR03706 657316004214 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 657316004215 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 657316004216 polyphosphate kinase; Provisional; Region: PRK05443 657316004217 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 657316004218 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 657316004219 putative active site [active] 657316004220 catalytic site [active] 657316004221 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 657316004222 putative active site [active] 657316004223 catalytic site [active] 657316004224 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 657316004225 Carbon starvation protein CstA; Region: CstA; pfam02554 657316004226 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 657316004227 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 657316004228 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 657316004229 active site 657316004230 dimer interface [polypeptide binding]; other site 657316004231 metal binding site [ion binding]; metal-binding site 657316004232 shikimate kinase; Reviewed; Region: aroK; PRK00131 657316004233 shikimate kinase; Reviewed; Region: aroK; PRK00131 657316004234 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 657316004235 ADP binding site [chemical binding]; other site 657316004236 magnesium binding site [ion binding]; other site 657316004237 putative shikimate binding site; other site 657316004238 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cl00323 657316004239 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cl00323 657316004240 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 657316004241 active site 657316004242 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 657316004243 putative active site [active] 657316004244 GIY-YIG motif/motif A; other site 657316004245 putative metal binding site [ion binding]; other site 657316004246 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 657316004247 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 657316004248 FMN binding site [chemical binding]; other site 657316004249 substrate binding site [chemical binding]; other site 657316004250 putative catalytic residue [active] 657316004251 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 657316004252 Uncharacterized conserved protein [Function unknown]; Region: COG0062 657316004253 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 657316004254 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 657316004255 putative substrate binding site [chemical binding]; other site 657316004256 putative ATP binding site [chemical binding]; other site 657316004257 PemK-like protein; Region: PemK; pfam02452 657316004258 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 657316004259 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 657316004260 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 657316004261 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 657316004262 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 657316004263 Sporulation and spore germination; Region: Germane; pfam10646 657316004264 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 657316004265 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA; cl00391 657316004266 active site clefts [active] 657316004267 zinc binding site [ion binding]; other site 657316004268 dimer interface [polypeptide binding]; other site 657316004269 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 657316004270 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 657316004271 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 657316004272 oligomer interface [polypeptide binding]; other site 657316004273 putative active site [active] 657316004274 metal binding site [ion binding]; metal-binding site 657316004275 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 657316004276 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 657316004277 active site 657316004278 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 657316004279 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 657316004280 metal binding site [ion binding]; metal-binding site 657316004281 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 657316004282 dimer interface [polypeptide binding]; other site 657316004283 catalytic triad [active] 657316004284 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 657316004285 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 657316004286 peptide binding site [polypeptide binding]; other site 657316004287 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 657316004288 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 657316004289 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 657316004290 glutamate dehydrogenase; Provisional; Region: PRK09414 657316004291 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 657316004292 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 657316004293 NAD(P) binding site [chemical binding]; other site 657316004294 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 657316004295 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 657316004296 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 657316004297 active site 657316004298 catalytic residues [active] 657316004299 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 657316004300 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 657316004301 putative substrate translocation pore; other site 657316004302 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 657316004303 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657316004304 DNA-binding site [nucleotide binding]; DNA binding site 657316004305 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 657316004306 intersubunit interface [polypeptide binding]; other site 657316004307 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 657316004308 active site 657316004309 Na+ binding site [ion binding]; other site 657316004310 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 657316004311 active site 657316004312 ADP/pyrophosphate binding site [chemical binding]; other site 657316004313 dimerization interface [polypeptide binding]; other site 657316004314 allosteric effector site; other site 657316004315 fructose-1,6-bisphosphate binding site; other site 657316004316 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 657316004317 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 657316004318 hexamer (dimer of trimers) interface [polypeptide binding]; other site 657316004319 substrate binding site [chemical binding]; other site 657316004320 trimer interface [polypeptide binding]; other site 657316004321 Mn binding site [ion binding]; other site 657316004322 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 657316004323 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 657316004324 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 657316004325 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 657316004326 dimer interface [polypeptide binding]; other site 657316004327 active site 657316004328 metal binding site [ion binding]; metal-binding site 657316004329 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 657316004330 dihydroxyacetone kinase; Provisional; Region: PRK14479 657316004331 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 657316004332 DAK2 domain; Region: Dak2; pfam02734 657316004333 alpha-glucosidase; Provisional; Region: PRK10426 657316004334 alpha-glucosidase; Provisional; Region: PRK10426 657316004335 YihQ is a bacterial alpha-glucosidase with a conserved glycosyl hydrolase family 31 (GH31) domain that catalyzes the release of an alpha-glucosyl residue from the non-reducing end of alpha-glucoside substrates such as alpha-glucosyl fluoride. Orthologs...; Region: GH31_glucosidase_YihQ; cd06594 657316004336 putative active site [active] 657316004337 putative catalytic site [active] 657316004338 S-layer homology domain; Region: SLH; pfam00395 657316004339 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 657316004340 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 657316004341 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 657316004342 S-adenosylmethionine binding site [chemical binding]; other site 657316004343 Protein of unknown function (DUF452); Region: DUF452; cl01062 657316004344 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 657316004345 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 657316004346 substrate-cofactor binding pocket; other site 657316004347 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316004348 catalytic residue [active] 657316004349 6-carboxyhexanoate--CoA ligase; Region: BioW; cl00625 657316004350 6-carboxyhexanoate--CoA ligase; Region: BioW; cl00625 657316004351 EamA-like transporter family; Region: EamA; pfam00892 657316004352 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 657316004353 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 657316004354 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 657316004355 ATP binding site [chemical binding]; other site 657316004356 putative Mg++ binding site [ion binding]; other site 657316004357 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 657316004358 Cupin domain; Region: Cupin_2; pfam07883 657316004359 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 657316004360 Helix-turn-helix domain; Region: HTH_18; pfam12833 657316004361 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 657316004362 catalytic residue [active] 657316004363 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 657316004364 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 657316004365 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 657316004366 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 657316004367 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 657316004368 putative substrate translocation pore; other site 657316004369 oxaloacetate decarboxylase; Provisional; Region: PRK12331 657316004370 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 657316004371 active site 657316004372 catalytic residues [active] 657316004373 metal binding site [ion binding]; metal-binding site 657316004374 homodimer binding site [polypeptide binding]; other site 657316004375 Rrf2 family protein; Region: rrf2_super; TIGR00738 657316004376 Transcriptional regulator; Region: Rrf2; pfam02082 657316004377 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 657316004378 glutamate racemase; Provisional; Region: PRK00865 657316004379 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cl00258 657316004380 active site 657316004381 metal binding site [ion binding]; metal-binding site 657316004382 dimerization interface [polypeptide binding]; other site 657316004383 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 657316004384 substrate binding site [chemical binding]; other site 657316004385 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 657316004386 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 657316004387 active site 657316004388 KMSKS motif; other site 657316004389 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 657316004390 HIGH motif; other site 657316004391 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 657316004392 homotrimer interaction site [polypeptide binding]; other site 657316004393 zinc binding site [ion binding]; other site 657316004394 CDP-binding sites; other site 657316004395 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 657316004396 substrate binding site; other site 657316004397 dimer interface; other site 657316004398 DNA repair protein RadA; Provisional; Region: PRK11823 657316004399 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 657316004400 Walker A motif/ATP binding site; other site 657316004401 ATP binding site [chemical binding]; other site 657316004402 Walker B motif; other site 657316004403 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 657316004404 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 657316004405 Clp amino terminal domain; Region: Clp_N; pfam02861 657316004406 Clp amino terminal domain; Region: Clp_N; pfam02861 657316004407 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 657316004408 Walker A motif; other site 657316004409 ATP binding site [chemical binding]; other site 657316004410 Walker B motif; other site 657316004411 arginine finger; other site 657316004412 UvrB/uvrC motif; Region: UVR; pfam02151 657316004413 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 657316004414 Walker A motif; other site 657316004415 ATP binding site [chemical binding]; other site 657316004416 Walker B motif; other site 657316004417 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 657316004418 Phosphagen (guanidino) kinases; Region: phosphagen_kinases; cl02823 657316004419 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 657316004420 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 657316004421 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657316004422 active site 657316004423 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 657316004424 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 657316004425 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 657316004426 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 657316004427 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 657316004428 S1 domain; Region: S1_2; pfam13509 657316004429 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 657316004430 RNA binding site [nucleotide binding]; other site 657316004431 S1 domain; Region: S1_2; pfam13509 657316004432 Oligomerisation domain; Region: Oligomerisation; pfam02410 657316004433 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 657316004434 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 657316004435 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 657316004436 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 657316004437 TrkA-N domain; Region: TrkA_N; pfam02254 657316004438 TrkA-C domain; Region: TrkA_C; pfam02080 657316004439 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 657316004440 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 657316004441 RuvA N terminal domain; Region: RuvA_N; pfam01330 657316004442 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 657316004443 active site 657316004444 putative DNA-binding cleft [nucleotide binding]; other site 657316004445 dimer interface [polypeptide binding]; other site 657316004446 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; cl00514 657316004447 FMN binding site [chemical binding]; other site 657316004448 hypothetical protein; Validated; Region: PRK00110 657316004449 Transglycosylase; Region: Transgly; pfam00912 657316004450 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 657316004451 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 657316004452 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 657316004453 MutS domain III; Region: MutS_III; pfam05192 657316004454 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 657316004455 Walker A/P-loop; other site 657316004456 ATP binding site [chemical binding]; other site 657316004457 Q-loop/lid; other site 657316004458 ABC transporter signature motif; other site 657316004459 Walker B; other site 657316004460 D-loop; other site 657316004461 H-loop/switch region; other site 657316004462 Collagenase; Region: DUF3656; pfam12392 657316004463 Peptidase family U32; Region: Peptidase_U32; pfam01136 657316004464 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 657316004465 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 657316004466 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 657316004467 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 657316004468 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 657316004469 Domain of unknown function (DUF368); Region: DUF368; cl00893 657316004470 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 657316004471 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 657316004472 FMN binding site [chemical binding]; other site 657316004473 active site 657316004474 catalytic residues [active] 657316004475 substrate binding site [chemical binding]; other site 657316004476 pantothenate kinase; Reviewed; Region: PRK13318 657316004477 Type III pantothenate kinase; Region: Pan_kinase; cl17198 657316004478 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 657316004479 putative DNA binding site [nucleotide binding]; other site 657316004480 dimerization interface [polypeptide binding]; other site 657316004481 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 657316004482 putative Zn2+ binding site [ion binding]; other site 657316004483 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 657316004484 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 657316004485 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 657316004486 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 657316004487 Walker A motif; other site 657316004488 ATP binding site [chemical binding]; other site 657316004489 Walker B motif; other site 657316004490 recombination factor protein RarA; Provisional; Region: PRK14700 657316004491 arginine finger; other site 657316004492 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 657316004493 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 657316004494 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 657316004495 Ligand Binding Site [chemical binding]; other site 657316004496 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 657316004497 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 657316004498 Nucleoside recognition; Region: Gate; pfam07670 657316004499 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 657316004500 Nucleoside recognition; Region: Gate; pfam07670 657316004501 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 657316004502 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 657316004503 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 657316004504 putative active site [active] 657316004505 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 657316004506 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 657316004507 dimerization interface [polypeptide binding]; other site 657316004508 putative Zn2+ binding site [ion binding]; other site 657316004509 putative DNA binding site [nucleotide binding]; other site 657316004510 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 657316004511 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 657316004512 NAD(P) binding site [chemical binding]; other site 657316004513 LDH/MDH dimer interface [polypeptide binding]; other site 657316004514 substrate binding site [chemical binding]; other site 657316004515 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 657316004516 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl17885 657316004517 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 657316004518 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 657316004519 PTS system arbutin-specific transporter subunit IIB; Provisional; Region: PRK09702 657316004520 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 657316004521 active site turn [active] 657316004522 phosphorylation site [posttranslational modification] 657316004523 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 657316004524 HPr interaction site; other site 657316004525 glycerol kinase (GK) interaction site [polypeptide binding]; other site 657316004526 active site 657316004527 phosphorylation site [posttranslational modification] 657316004528 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 657316004529 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 657316004530 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 657316004531 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 657316004532 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 657316004533 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 657316004534 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 657316004535 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 657316004536 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 657316004537 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 657316004538 N-terminal plug; other site 657316004539 ligand-binding site [chemical binding]; other site 657316004540 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 657316004541 intersubunit interface [polypeptide binding]; other site 657316004542 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 657316004543 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 657316004544 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 657316004545 dimer interface [polypeptide binding]; other site 657316004546 putative PBP binding regions; other site 657316004547 ABC-ATPase subunit interface; other site 657316004548 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 657316004549 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 657316004550 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 657316004551 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 657316004552 intersubunit interface [polypeptide binding]; other site 657316004553 CGGC domain; Region: CGGC; cl02356 657316004554 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 657316004555 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657316004556 LrgB-like family; Region: LrgB; cl00596 657316004557 LrgB-like family; Region: LrgB; cl00596 657316004558 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 657316004559 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 657316004560 ligand binding site [chemical binding]; other site 657316004561 Sm and related proteins; Region: Sm_like; cl00259 657316004562 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 657316004563 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 657316004564 homodimer interface [polypeptide binding]; other site 657316004565 substrate-cofactor binding pocket; other site 657316004566 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316004567 catalytic residue [active] 657316004568 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 657316004569 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 657316004570 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 657316004571 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 657316004572 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 657316004573 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 657316004574 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 657316004575 intersubunit interface [polypeptide binding]; other site 657316004576 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 657316004577 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 657316004578 ABC-ATPase subunit interface; other site 657316004579 dimer interface [polypeptide binding]; other site 657316004580 putative PBP binding regions; other site 657316004581 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 657316004582 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 657316004583 Walker A/P-loop; other site 657316004584 ATP binding site [chemical binding]; other site 657316004585 Q-loop/lid; other site 657316004586 ABC transporter signature motif; other site 657316004587 Walker B; other site 657316004588 D-loop; other site 657316004589 H-loop/switch region; other site 657316004590 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657316004591 ABC transporter signature motif; other site 657316004592 Walker B; other site 657316004593 D-loop; other site 657316004594 Flavodoxin domain; Region: Flavodoxin_3; pfam12641 657316004595 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 657316004596 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 657316004597 FeS/SAM binding site; other site 657316004598 putative heme utilization radical SAM enzyme HutW; Region: rSAM_HutW; TIGR04107 657316004599 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 657316004600 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 657316004601 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 657316004602 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 657316004603 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 657316004604 N-terminal plug; other site 657316004605 ligand-binding site [chemical binding]; other site 657316004606 Protein of unknown function, DUF399; Region: DUF399; pfam04187 657316004607 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 657316004608 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 657316004609 trimerization site [polypeptide binding]; other site 657316004610 active site 657316004611 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 657316004612 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 657316004613 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 657316004614 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 657316004615 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657316004616 catalytic residue [active] 657316004617 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 657316004618 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 657316004619 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 657316004620 FeS assembly protein SufB; Region: sufB; TIGR01980 657316004621 FeS assembly protein SufB; Region: sufB; TIGR01980 657316004622 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657316004623 Walker B; other site 657316004624 D-loop; other site 657316004625 H-loop/switch region; other site 657316004626 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657316004627 Walker A/P-loop; other site 657316004628 ATP binding site [chemical binding]; other site 657316004629 Q-loop/lid; other site 657316004630 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 657316004631 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 657316004632 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 657316004633 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 657316004634 putative substrate translocation pore; other site 657316004635 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 657316004636 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 657316004637 metal-binding site [ion binding] 657316004638 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 657316004639 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657316004640 Soluble P-type ATPase [General function prediction only]; Region: COG4087 657316004641 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 657316004642 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 657316004643 Predicted transcriptional regulators [Transcription]; Region: COG1733 657316004644 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 657316004645 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 657316004646 active site residue [active] 657316004647 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 657316004648 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 657316004649 substrate binding site [chemical binding]; other site 657316004650 dimer interface [polypeptide binding]; other site 657316004651 ATP binding site [chemical binding]; other site 657316004652 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657316004653 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 657316004654 ligand binding site [chemical binding]; other site 657316004655 Bax inhibitor 1 like; Region: BaxI_1; cl17691 657316004656 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 657316004657 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 657316004658 ATP binding site [chemical binding]; other site 657316004659 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 657316004660 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 657316004661 ATP binding site [chemical binding]; other site 657316004662 Mg2+ binding site [ion binding]; other site 657316004663 G-X-G motif; other site 657316004664 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 657316004665 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 657316004666 MutS domain I; Region: MutS_I; pfam01624 657316004667 MutS domain II; Region: MutS_II; pfam05188 657316004668 MutS domain III; Region: MutS_III; pfam05192 657316004669 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 657316004670 Walker A/P-loop; other site 657316004671 ATP binding site [chemical binding]; other site 657316004672 Q-loop/lid; other site 657316004673 ABC transporter signature motif; other site 657316004674 Walker B; other site 657316004675 D-loop; other site 657316004676 H-loop/switch region; other site 657316004677 TRAM domain; Region: TRAM; cl01282 657316004678 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 657316004679 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 657316004680 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 657316004681 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 657316004682 active site 657316004683 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 657316004684 Beta-lactamase; Region: Beta-lactamase; pfam00144 657316004685 BioY family; Region: BioY; pfam02632 657316004686 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 657316004687 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 657316004688 S-adenosylmethionine binding site [chemical binding]; other site 657316004689 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 657316004690 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 657316004691 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 657316004692 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 657316004693 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 657316004694 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 657316004695 putative dimer interface [polypeptide binding]; other site 657316004696 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 657316004697 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 657316004698 active site 657316004699 catalytic tetrad [active] 657316004700 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 657316004701 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 657316004702 GTP/Mg2+ binding site [chemical binding]; other site 657316004703 G4 box; other site 657316004704 G5 box; other site 657316004705 G1 box; other site 657316004706 Switch I region; other site 657316004707 G2 box; other site 657316004708 G3 box; other site 657316004709 Switch II region; other site 657316004710 Protein of unknown function (DUF552); Region: DUF552; pfam04472 657316004711 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 657316004712 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 657316004713 nucleotide binding region [chemical binding]; other site 657316004714 ATP-binding site [chemical binding]; other site 657316004715 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 657316004716 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 657316004717 PLD-like domain; Region: PLDc_2; pfam13091 657316004718 putative homodimer interface [polypeptide binding]; other site 657316004719 putative active site [active] 657316004720 catalytic site [active] 657316004721 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 657316004722 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 657316004723 pentamer interface [polypeptide binding]; other site 657316004724 dodecaamer interface [polypeptide binding]; other site 657316004725 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 657316004726 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657316004727 NAD(P) binding site [chemical binding]; other site 657316004728 active site 657316004729 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 657316004730 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 657316004731 RNA/DNA hybrid binding site [nucleotide binding]; other site 657316004732 active site 657316004733 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 657316004734 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 657316004735 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 657316004736 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657316004737 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657316004738 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 657316004739 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657316004740 ABC transporter; Region: ABC_tran_2; pfam12848 657316004741 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 657316004742 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657316004743 Melibiase; Region: Melibiase; pfam02065 657316004744 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 657316004745 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 657316004746 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 657316004747 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 657316004748 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 657316004749 putative substrate binding pocket [chemical binding]; other site 657316004750 dimer interface [polypeptide binding]; other site 657316004751 phosphate binding site [ion binding]; other site 657316004752 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 657316004753 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 657316004754 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 657316004755 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 657316004756 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 657316004757 putative active site [active] 657316004758 putative metal binding site [ion binding]; other site 657316004759 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 657316004760 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 657316004761 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 657316004762 FeS/SAM binding site; other site 657316004763 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 657316004764 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 657316004765 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 657316004766 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 657316004767 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 657316004768 Phosphoglycerate kinase; Region: PGK; pfam00162 657316004769 substrate binding site [chemical binding]; other site 657316004770 hinge regions; other site 657316004771 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; cl00198 657316004772 ADP binding site [chemical binding]; other site 657316004773 catalytic site [active] 657316004774 triosephosphate isomerase; Provisional; Region: PRK14567 657316004775 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 657316004776 substrate binding site [chemical binding]; other site 657316004777 dimer interface [polypeptide binding]; other site 657316004778 catalytic triad [active] 657316004779 phosphoglyceromutase; Provisional; Region: PRK05434 657316004780 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 657316004781 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 657316004782 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 657316004783 GGGtGRT protein; Region: GGGtGRT; pfam14057 657316004784 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 657316004785 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; cl17342 657316004786 domain interfaces; other site 657316004787 active site 657316004788 Enolase, N-terminal domain; Region: Enolase_N; pfam03952 657316004789 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 657316004790 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 657316004791 FeS/SAM binding site; other site 657316004792 16S rRNA methyltransferase B; Provisional; Region: PRK14902 657316004793 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 657316004794 putative RNA binding site [nucleotide binding]; other site 657316004795 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 657316004796 Purine nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pnp; COG0005 657316004797 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 657316004798 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 657316004799 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 657316004800 FeS/SAM binding site; other site 657316004801 Membrane transport protein; Region: Mem_trans; cl09117 657316004802 Autotransporter beta-domain; Region: Autotransporter; pfam03797 657316004803 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 657316004804 Esterase/lipase [General function prediction only]; Region: COG1647 657316004805 Esterase/lipase [General function prediction only]; Region: COG1647 657316004806 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 657316004807 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 657316004808 RNB domain; Region: RNB; pfam00773 657316004809 RNB domain; Region: RNB; pfam00773 657316004810 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 657316004811 RNA binding site [nucleotide binding]; other site 657316004812 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 657316004813 SmpB-tmRNA interface; other site 657316004814 YceG-like family; Region: YceG; pfam02618 657316004815 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 657316004816 dimerization interface [polypeptide binding]; other site 657316004817 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 657316004818 Peptidase family U32; Region: Peptidase_U32; pfam01136 657316004819 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 657316004820 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 657316004821 hexamer interface [polypeptide binding]; other site 657316004822 ligand binding site [chemical binding]; other site 657316004823 putative active site [active] 657316004824 NAD(P) binding site [chemical binding]; other site 657316004825 amino acid transporter; Region: 2A0306; TIGR00909 657316004826 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 657316004827 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 657316004828 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 657316004829 Walker A motif; other site 657316004830 ATP binding site [chemical binding]; other site 657316004831 Walker B motif; other site 657316004832 arginine finger; other site 657316004833 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 657316004834 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 657316004835 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 657316004836 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 657316004837 Walker A motif; other site 657316004838 homodimer interface [polypeptide binding]; other site 657316004839 ATP binding site [chemical binding]; other site 657316004840 hydroxycobalamin binding site [chemical binding]; other site 657316004841 Walker B motif; other site 657316004842 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 657316004843 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 657316004844 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657316004845 catalytic residue [active] 657316004846 Uncharacterized conserved protein [Function unknown]; Region: COG1739 657316004847 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 657316004848 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 657316004849 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 657316004850 Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: AlaS; COG0013 657316004851 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 657316004852 4Fe-4S binding domain; Region: Fer4; pfam00037 657316004853 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 657316004854 phosphate binding site [ion binding]; other site 657316004855 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 657316004856 domain_subunit interface; other site 657316004857 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 657316004858 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657316004859 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 657316004860 Nitroreductase family; Region: Nitroreductase; pfam00881 657316004861 FMN binding site [chemical binding]; other site 657316004862 dimer interface [polypeptide binding]; other site 657316004863 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 657316004864 Sodium Bile acid symporter family; Region: SBF; pfam01758 657316004865 Peptidase family M48; Region: Peptidase_M48; cl12018 657316004866 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 657316004867 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 657316004868 active site 657316004869 catalytic site [active] 657316004870 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 657316004871 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 657316004872 Melibiase; Region: Melibiase; pfam02065 657316004873 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657316004874 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657316004875 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657316004876 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657316004877 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 657316004878 active site 657316004879 catalytic residues [active] 657316004880 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657316004881 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657316004882 DNA binding site [nucleotide binding] 657316004883 domain linker motif; other site 657316004884 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 657316004885 dimerization interface [polypeptide binding]; other site 657316004886 ligand binding site [chemical binding]; other site 657316004887 Galactose-1-phosphate uridyltransferase [Carbohydrate transport and metabolism]; Region: GalT; COG4468 657316004888 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 657316004889 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 657316004890 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 657316004891 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 657316004892 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 657316004893 NAD binding site [chemical binding]; other site 657316004894 homodimer interface [polypeptide binding]; other site 657316004895 active site 657316004896 substrate binding site [chemical binding]; other site 657316004897 rhamnulose-1-phosphate aldolase; Provisional; Region: PRK03634 657316004898 intersubunit interface [polypeptide binding]; other site 657316004899 active site 657316004900 Zn2+ binding site [ion binding]; other site 657316004901 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 657316004902 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 657316004903 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 657316004904 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657316004905 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 657316004906 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 657316004907 Walker A/P-loop; other site 657316004908 ATP binding site [chemical binding]; other site 657316004909 Q-loop/lid; other site 657316004910 ABC transporter signature motif; other site 657316004911 Walker B; other site 657316004912 D-loop; other site 657316004913 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 657316004914 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 657316004915 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 657316004916 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 657316004917 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657316004918 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 657316004919 Walker A/P-loop; other site 657316004920 ATP binding site [chemical binding]; other site 657316004921 Q-loop/lid; other site 657316004922 ABC transporter signature motif; other site 657316004923 Walker B; other site 657316004924 D-loop; other site 657316004925 H-loop/switch region; other site 657316004926 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 657316004927 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657316004928 Walker A/P-loop; other site 657316004929 ATP binding site [chemical binding]; other site 657316004930 Q-loop/lid; other site 657316004931 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 657316004932 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657316004933 ABC transporter signature motif; other site 657316004934 Walker B; other site 657316004935 D-loop; other site 657316004936 H-loop/switch region; other site 657316004937 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 657316004938 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 657316004939 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 657316004940 trimer interface [polypeptide binding]; other site 657316004941 oxyanion hole (OAH) forming residues; other site 657316004942 glycerate kinase; Region: TIGR00045 657316004943 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 657316004944 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 657316004945 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 657316004946 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 657316004947 active site 657316004948 P-loop; other site 657316004949 phosphorylation site [posttranslational modification] 657316004950 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cl00163 657316004951 active site 657316004952 phosphorylation site [posttranslational modification] 657316004953 HTH domain; Region: HTH_11; cl17392 657316004954 K+ potassium transporter; Region: K_trans; cl15781 657316004955 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657316004956 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 657316004957 active site 657316004958 phosphorylation site [posttranslational modification] 657316004959 intermolecular recognition site; other site 657316004960 dimerization interface [polypeptide binding]; other site 657316004961 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 657316004962 DNA binding site [nucleotide binding] 657316004963 PAS domain; Region: PAS_9; pfam13426 657316004964 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 657316004965 dimer interface [polypeptide binding]; other site 657316004966 phosphorylation site [posttranslational modification] 657316004967 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 657316004968 ATP binding site [chemical binding]; other site 657316004969 Mg2+ binding site [ion binding]; other site 657316004970 G-X-G motif; other site 657316004971 ThiC family; Region: ThiC; cl08031 657316004972 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 657316004973 ThiC family; Region: ThiC; cl08031 657316004974 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 657316004975 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 657316004976 Carbon starvation protein CstA; Region: CstA; pfam02554 657316004977 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 657316004978 DNA-binding site [nucleotide binding]; DNA binding site 657316004979 RNA-binding motif; other site 657316004980 Domain of unknown function (DUF386); Region: DUF386; cl01047 657316004981 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00539 657316004982 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 657316004983 gamma subunit interface [polypeptide binding]; other site 657316004984 epsilon subunit interface [polypeptide binding]; other site 657316004985 LBP interface [polypeptide binding]; other site 657316004986 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 657316004987 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 657316004988 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 657316004989 beta subunit interaction interface [polypeptide binding]; other site 657316004990 Walker A motif; other site 657316004991 ATP binding site [chemical binding]; other site 657316004992 Walker B motif; other site 657316004993 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 657316004994 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 657316004995 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 657316004996 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 657316004997 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 657316004998 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 657316004999 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 657316005000 Mechanosensitive ion channel; Region: MS_channel; pfam00924 657316005001 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 657316005002 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 657316005003 Predicted membrane protein [Function unknown]; Region: COG2119 657316005004 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 657316005005 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 657316005006 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 657316005007 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 657316005008 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 657316005009 AIR carboxylase; Region: AIRC; smart01001 657316005010 Protein of unknown function DUF111; Region: DUF111; cl03398 657316005011 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 657316005012 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 657316005013 Ligand Binding Site [chemical binding]; other site 657316005014 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 657316005015 Phosphate transporter family; Region: PHO4; pfam01384 657316005016 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 657316005017 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 657316005018 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 657316005019 AsnC family; Region: AsnC_trans_reg; pfam01037 657316005020 hypothetical protein; Validated; Region: PRK07682 657316005021 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 657316005022 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316005023 homodimer interface [polypeptide binding]; other site 657316005024 catalytic residue [active] 657316005025 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 657316005026 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 657316005027 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 657316005028 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 657316005029 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 657316005030 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 657316005031 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 657316005032 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 657316005033 tetramer interface [polypeptide binding]; other site 657316005034 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316005035 catalytic residue [active] 657316005036 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 657316005037 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 657316005038 tetramer interface [polypeptide binding]; other site 657316005039 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316005040 catalytic residue [active] 657316005041 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 657316005042 lipoyl attachment site [posttranslational modification]; other site 657316005043 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 657316005044 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 657316005045 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 657316005046 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 657316005047 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 657316005048 putative substrate translocation pore; other site 657316005049 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 657316005050 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 657316005051 ligand binding site [chemical binding]; other site 657316005052 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 657316005053 non-specific DNA interactions [nucleotide binding]; other site 657316005054 DNA binding site [nucleotide binding] 657316005055 sequence specific DNA binding site [nucleotide binding]; other site 657316005056 putative cAMP binding site [chemical binding]; other site 657316005057 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 657316005058 Radical SAM superfamily; Region: Radical_SAM; pfam04055 657316005059 FeS/SAM binding site; other site 657316005060 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 657316005061 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657316005062 acyl-activating enzyme (AAE) consensus motif; other site 657316005063 active site 657316005064 AMP binding site [chemical binding]; other site 657316005065 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 657316005066 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657316005067 active site 657316005068 metal binding site [ion binding]; metal-binding site 657316005069 DNA binding site [nucleotide binding] 657316005070 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 657316005071 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657316005072 AAA domain; Region: AAA_23; pfam13476 657316005073 Walker A/P-loop; other site 657316005074 ATP binding site [chemical binding]; other site 657316005075 Q-loop/lid; other site 657316005076 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 657316005077 Eukaryotic phosphomannomutase; Region: PMM; cl17107 657316005078 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 657316005079 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 657316005080 active site 657316005081 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 657316005082 threonine dehydratase; Provisional; Region: PRK08198 657316005083 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 657316005084 tetramer interface [polypeptide binding]; other site 657316005085 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316005086 catalytic residue [active] 657316005087 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 657316005088 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 657316005089 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 657316005090 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 657316005091 substrate binding site [chemical binding]; other site 657316005092 ligand binding site [chemical binding]; other site 657316005093 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 657316005094 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 657316005095 Citrate synthase; Region: Citrate_synt; pfam00285 657316005096 oxalacetate binding site [chemical binding]; other site 657316005097 citrylCoA binding site [chemical binding]; other site 657316005098 coenzyme A binding site [chemical binding]; other site 657316005099 catalytic triad [active] 657316005100 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 657316005101 isocitrate dehydrogenase; Validated; Region: PRK06451 657316005102 hypothetical protein; Provisional; Region: PRK08912 657316005103 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 657316005104 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657316005105 homodimer interface [polypeptide binding]; other site 657316005106 catalytic residue [active] 657316005107 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 657316005108 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180