-- dump date 20140618_183755 -- class Genbank::misc_feature -- table misc_feature_note -- id note 634459000001 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 634459000002 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 634459000003 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 634459000004 active site 634459000005 Int/Topo IB signature motif; other site 634459000006 hypothetical protein; Validated; Region: PRK00124 634459000007 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 634459000008 dimer interface [polypeptide binding]; other site 634459000009 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 634459000010 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 634459000011 putative substrate translocation pore; other site 634459000012 Uncharacterized conserved protein [Function unknown]; Region: COG2835 634459000013 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 634459000014 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 634459000015 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 634459000016 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 634459000017 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 634459000018 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 634459000019 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 634459000020 Creatinine amidohydrolase; Region: Creatininase; pfam02633 634459000021 Uncharacterized conserved protein [Function unknown]; Region: COG3391 634459000022 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 634459000023 AAA ATPase domain; Region: AAA_16; pfam13191 634459000024 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 634459000025 Uncharacterized conserved protein [Function unknown]; Region: COG3410 634459000026 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 634459000027 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 634459000028 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 634459000029 putative FMN binding site [chemical binding]; other site 634459000030 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 634459000031 Glycoprotease family; Region: Peptidase_M22; pfam00814 634459000032 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634459000033 Coenzyme A binding pocket [chemical binding]; other site 634459000034 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 634459000035 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 634459000036 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 634459000037 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 634459000038 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 634459000039 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 634459000040 generic binding surface II; other site 634459000041 generic binding surface I; other site 634459000042 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; cd01494 634459000043 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634459000044 catalytic residue [active] 634459000045 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634459000046 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 634459000047 NAD(P) binding site [chemical binding]; other site 634459000048 catalytic residues [active] 634459000049 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 634459000050 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 634459000051 NAD binding site [chemical binding]; other site 634459000052 substrate binding site [chemical binding]; other site 634459000053 catalytic Zn binding site [ion binding]; other site 634459000054 tetramer interface [polypeptide binding]; other site 634459000055 structural Zn binding site [ion binding]; other site 634459000056 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 634459000057 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 634459000058 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 634459000059 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 634459000060 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 634459000061 ligand binding site [chemical binding]; other site 634459000062 homodimer interface [polypeptide binding]; other site 634459000063 NAD(P) binding site [chemical binding]; other site 634459000064 trimer interface B [polypeptide binding]; other site 634459000065 trimer interface A [polypeptide binding]; other site 634459000066 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 634459000067 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 634459000068 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 634459000069 Iron-sulfur protein interface; other site 634459000070 proximal quinone binding site [chemical binding]; other site 634459000071 SdhD (CybS) interface [polypeptide binding]; other site 634459000072 proximal heme binding site [chemical binding]; other site 634459000073 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 634459000074 putative SdhC subunit interface [polypeptide binding]; other site 634459000075 putative proximal heme binding site [chemical binding]; other site 634459000076 putative Iron-sulfur protein interface [polypeptide binding]; other site 634459000077 putative proximal quinone binding site; other site 634459000078 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 634459000079 L-aspartate oxidase; Provisional; Region: PRK06175 634459000080 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 634459000081 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 634459000082 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 634459000083 Putative phosphatase (DUF442); Region: DUF442; cl17385 634459000084 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 634459000085 EamA-like transporter family; Region: EamA; pfam00892 634459000086 Phosphoglycerate kinase; Region: PGK; pfam00162 634459000087 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 634459000088 substrate binding site [chemical binding]; other site 634459000089 hinge regions; other site 634459000090 ADP binding site [chemical binding]; other site 634459000091 catalytic site [active] 634459000092 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 634459000093 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 634459000094 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 634459000095 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 634459000096 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 634459000097 TPP-binding site [chemical binding]; other site 634459000098 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 634459000099 PYR/PP interface [polypeptide binding]; other site 634459000100 dimer interface [polypeptide binding]; other site 634459000101 TPP binding site [chemical binding]; other site 634459000102 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634459000103 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 634459000104 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 634459000105 substrate-cofactor binding pocket; other site 634459000106 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459000107 catalytic residue [active] 634459000108 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 634459000109 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 634459000110 catalytic residues [active] 634459000111 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 634459000112 recombinase A; Provisional; Region: recA; PRK09354 634459000113 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 634459000114 hexamer interface [polypeptide binding]; other site 634459000115 Walker A motif; other site 634459000116 ATP binding site [chemical binding]; other site 634459000117 Walker B motif; other site 634459000118 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 634459000119 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634459000120 Coenzyme A binding pocket [chemical binding]; other site 634459000121 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 634459000122 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 634459000123 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 634459000124 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 634459000125 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 634459000126 Ligand binding site; other site 634459000127 DXD motif; other site 634459000128 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 634459000129 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 634459000130 active site 634459000131 dimer interface [polypeptide binding]; other site 634459000132 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 634459000133 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 634459000134 putative substrate translocation pore; other site 634459000135 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 634459000136 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 634459000137 Walker A motif; other site 634459000138 ATP binding site [chemical binding]; other site 634459000139 Walker B motif; other site 634459000140 arginine finger; other site 634459000141 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 634459000142 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 634459000143 hypothetical protein; Validated; Region: PRK00153 634459000144 recombination protein RecR; Reviewed; Region: recR; PRK00076 634459000145 RecR protein; Region: RecR; pfam02132 634459000146 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 634459000147 putative active site [active] 634459000148 putative metal-binding site [ion binding]; other site 634459000149 tetramer interface [polypeptide binding]; other site 634459000150 short chain dehydrogenase; Provisional; Region: PRK09134 634459000151 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634459000152 NAD(P) binding site [chemical binding]; other site 634459000153 active site 634459000154 Dihydroneopterin aldolase; Region: FolB; pfam02152 634459000155 active site 634459000156 TIGR02300 family protein; Region: FYDLN_acid 634459000157 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 634459000158 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 634459000159 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 634459000160 hinge; other site 634459000161 active site 634459000162 cytidylate kinase; Provisional; Region: cmk; PRK00023 634459000163 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 634459000164 CMP-binding site; other site 634459000165 The sites determining sugar specificity; other site 634459000166 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 634459000167 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 634459000168 RNA binding site [nucleotide binding]; other site 634459000169 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 634459000170 RNA binding site [nucleotide binding]; other site 634459000171 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 634459000172 RNA binding site [nucleotide binding]; other site 634459000173 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 634459000174 RNA binding site [nucleotide binding]; other site 634459000175 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 634459000176 RNA binding site [nucleotide binding]; other site 634459000177 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 634459000178 RNA binding site [nucleotide binding]; other site 634459000179 Major royal jelly protein; Region: MRJP; pfam03022 634459000180 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 634459000181 active site 634459000182 dimerization interface [polypeptide binding]; other site 634459000183 ribonuclease PH; Reviewed; Region: rph; PRK00173 634459000184 Ribonuclease PH; Region: RNase_PH_bact; cd11362 634459000185 hexamer interface [polypeptide binding]; other site 634459000186 active site 634459000187 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 634459000188 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 634459000189 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 634459000190 Transglycosylase; Region: Transgly; pfam00912 634459000191 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 634459000192 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 634459000193 This domain is found in peptide chain release factors; Region: PCRF; smart00937 634459000194 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 634459000195 RF-1 domain; Region: RF-1; pfam00472 634459000196 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634459000197 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 634459000198 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634459000199 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 634459000200 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634459000201 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 634459000202 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 634459000203 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 634459000204 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 634459000205 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 634459000206 rod shape-determining protein MreC; Provisional; Region: PRK13922 634459000207 rod shape-determining protein MreC; Region: MreC; pfam04085 634459000208 rod shape-determining protein MreB; Provisional; Region: PRK13927 634459000209 MreB and similar proteins; Region: MreB_like; cd10225 634459000210 nucleotide binding site [chemical binding]; other site 634459000211 Mg binding site [ion binding]; other site 634459000212 putative protofilament interaction site [polypeptide binding]; other site 634459000213 RodZ interaction site [polypeptide binding]; other site 634459000214 2-isopropylmalate synthase; Validated; Region: PRK00915 634459000215 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 634459000216 active site 634459000217 catalytic residues [active] 634459000218 metal binding site [ion binding]; metal-binding site 634459000219 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 634459000220 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 634459000221 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 634459000222 Uncharacterized conserved protein [Function unknown]; Region: COG0398 634459000223 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 634459000224 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 634459000225 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 634459000226 putative substrate translocation pore; other site 634459000227 PAS fold; Region: PAS_7; pfam12860 634459000228 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634459000229 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 634459000230 dimer interface [polypeptide binding]; other site 634459000231 phosphorylation site [posttranslational modification] 634459000232 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 634459000233 ATP binding site [chemical binding]; other site 634459000234 Mg2+ binding site [ion binding]; other site 634459000235 G-X-G motif; other site 634459000236 Response regulator receiver domain; Region: Response_reg; pfam00072 634459000237 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 634459000238 active site 634459000239 phosphorylation site [posttranslational modification] 634459000240 intermolecular recognition site; other site 634459000241 dimerization interface [polypeptide binding]; other site 634459000242 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634459000243 active site 634459000244 Fusaric acid resistance protein family; Region: FUSC; pfam04632 634459000245 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634459000246 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 634459000247 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 634459000248 MOFRL family; Region: MOFRL; pfam05161 634459000249 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 634459000250 ligand binding site [chemical binding]; other site 634459000251 active site 634459000252 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634459000253 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634459000254 Cytochrome c; Region: Cytochrom_C; pfam00034 634459000255 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 634459000256 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 634459000257 Trp docking motif [polypeptide binding]; other site 634459000258 cytochrome domain interface [polypeptide binding]; other site 634459000259 active site 634459000260 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634459000261 Cytochrome c; Region: Cytochrom_C; pfam00034 634459000262 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 634459000263 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 634459000264 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 634459000265 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 634459000266 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 634459000267 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 634459000268 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 634459000269 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 634459000270 D-pathway; other site 634459000271 Putative ubiquinol binding site [chemical binding]; other site 634459000272 Low-spin heme (heme b) binding site [chemical binding]; other site 634459000273 Putative water exit pathway; other site 634459000274 Binuclear center (heme o3/CuB) [ion binding]; other site 634459000275 K-pathway; other site 634459000276 Putative proton exit pathway; other site 634459000277 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 634459000278 Subunit I/III interface [polypeptide binding]; other site 634459000279 Subunit III/IV interface [polypeptide binding]; other site 634459000280 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 634459000281 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 634459000282 4Fe-4S binding domain; Region: Fer4; pfam00037 634459000283 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 634459000284 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 634459000285 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 634459000286 nucleotide binding region [chemical binding]; other site 634459000287 ATP-binding site [chemical binding]; other site 634459000288 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 634459000289 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 634459000290 interface (dimer of trimers) [polypeptide binding]; other site 634459000291 Substrate-binding/catalytic site; other site 634459000292 Zn-binding sites [ion binding]; other site 634459000293 MarR family; Region: MarR; pfam01047 634459000294 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 634459000295 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 634459000296 Mg++ binding site [ion binding]; other site 634459000297 putative catalytic motif [active] 634459000298 putative substrate binding site [chemical binding]; other site 634459000299 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 634459000300 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 634459000301 NAD(P) binding site [chemical binding]; other site 634459000302 homodimer interface [polypeptide binding]; other site 634459000303 substrate binding site [chemical binding]; other site 634459000304 active site 634459000305 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 634459000306 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 634459000307 inhibitor-cofactor binding pocket; inhibition site 634459000308 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459000309 catalytic residue [active] 634459000310 dihydroorotase; Validated; Region: PRK09060 634459000311 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 634459000312 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 634459000313 active site 634459000314 glutathione reductase; Validated; Region: PRK06116 634459000315 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634459000316 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634459000317 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 634459000318 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 634459000319 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 634459000320 FAD binding pocket [chemical binding]; other site 634459000321 FAD binding motif [chemical binding]; other site 634459000322 phosphate binding motif [ion binding]; other site 634459000323 beta-alpha-beta structure motif; other site 634459000324 NAD binding pocket [chemical binding]; other site 634459000325 DEAD-like helicases superfamily; Region: DEXDc; smart00487 634459000326 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 634459000327 ATP binding site [chemical binding]; other site 634459000328 putative Mg++ binding site [ion binding]; other site 634459000329 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 634459000330 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 634459000331 nucleotide binding region [chemical binding]; other site 634459000332 ATP-binding site [chemical binding]; other site 634459000333 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 634459000334 short chain dehydrogenase; Provisional; Region: PRK06197 634459000335 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634459000336 NAD(P) binding site [chemical binding]; other site 634459000337 active site 634459000338 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 634459000339 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 634459000340 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 634459000341 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 634459000342 malate dehydrogenase; Provisional; Region: PRK13529 634459000343 Malic enzyme, N-terminal domain; Region: malic; pfam00390 634459000344 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 634459000345 NAD(P) binding site [chemical binding]; other site 634459000346 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 634459000347 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 634459000348 putative homodimer interface [polypeptide binding]; other site 634459000349 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 634459000350 heterodimer interface [polypeptide binding]; other site 634459000351 homodimer interface [polypeptide binding]; other site 634459000352 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 634459000353 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; COG0712 634459000354 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 634459000355 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 634459000356 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 634459000357 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 634459000358 beta subunit interaction interface [polypeptide binding]; other site 634459000359 Walker A motif; other site 634459000360 ATP binding site [chemical binding]; other site 634459000361 Walker B motif; other site 634459000362 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 634459000363 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 634459000364 core domain interface [polypeptide binding]; other site 634459000365 delta subunit interface [polypeptide binding]; other site 634459000366 epsilon subunit interface [polypeptide binding]; other site 634459000367 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 634459000368 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 634459000369 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 634459000370 alpha subunit interaction interface [polypeptide binding]; other site 634459000371 Walker A motif; other site 634459000372 ATP binding site [chemical binding]; other site 634459000373 Walker B motif; other site 634459000374 inhibitor binding site; inhibition site 634459000375 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 634459000376 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 634459000377 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 634459000378 gamma subunit interface [polypeptide binding]; other site 634459000379 epsilon subunit interface [polypeptide binding]; other site 634459000380 LBP interface [polypeptide binding]; other site 634459000381 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 634459000382 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 634459000383 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 634459000384 catalytic site [active] 634459000385 putative active site [active] 634459000386 putative substrate binding site [chemical binding]; other site 634459000387 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 634459000388 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 634459000389 substrate binding site [chemical binding]; other site 634459000390 ATP binding site [chemical binding]; other site 634459000391 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 634459000392 GcrA cell cycle regulator; Region: GcrA; cl11564 634459000393 GcrA cell cycle regulator; Region: GcrA; cl11564 634459000394 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 634459000395 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 634459000396 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459000397 Walker A/P-loop; other site 634459000398 ATP binding site [chemical binding]; other site 634459000399 Q-loop/lid; other site 634459000400 ABC transporter signature motif; other site 634459000401 Walker B; other site 634459000402 D-loop; other site 634459000403 H-loop/switch region; other site 634459000404 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 634459000405 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 634459000406 dimer interface [polypeptide binding]; other site 634459000407 conserved gate region; other site 634459000408 putative PBP binding loops; other site 634459000409 ABC-ATPase subunit interface; other site 634459000410 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 634459000411 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 634459000412 dimer interface [polypeptide binding]; other site 634459000413 conserved gate region; other site 634459000414 putative PBP binding loops; other site 634459000415 ABC-ATPase subunit interface; other site 634459000416 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459000417 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 634459000418 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 634459000419 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 634459000420 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 634459000421 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 634459000422 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634459000423 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 634459000424 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 634459000425 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 634459000426 ethanolamine permease; Region: 2A0305; TIGR00908 634459000427 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 634459000428 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634459000429 HlyD family secretion protein; Region: HlyD_3; pfam13437 634459000430 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 634459000431 Protein export membrane protein; Region: SecD_SecF; cl14618 634459000432 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 634459000433 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 634459000434 DNA-binding site [nucleotide binding]; DNA binding site 634459000435 RNA-binding motif; other site 634459000436 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459000437 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459000438 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634459000439 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 634459000440 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 634459000441 N-terminal plug; other site 634459000442 ligand-binding site [chemical binding]; other site 634459000443 hypothetical protein; Provisional; Region: PRK09945 634459000444 Hint domain; Region: Hint_2; pfam13403 634459000445 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 634459000446 formamidase; Provisional; Region: amiF; PRK13287 634459000447 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 634459000448 multimer interface [polypeptide binding]; other site 634459000449 active site 634459000450 catalytic triad [active] 634459000451 dimer interface [polypeptide binding]; other site 634459000452 Response regulator receiver domain; Region: Response_reg; pfam00072 634459000453 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 634459000454 active site 634459000455 phosphorylation site [posttranslational modification] 634459000456 intermolecular recognition site; other site 634459000457 dimerization interface [polypeptide binding]; other site 634459000458 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 634459000459 DNA binding residues [nucleotide binding] 634459000460 dimerization interface [polypeptide binding]; other site 634459000461 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 634459000462 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634459000463 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 634459000464 dimer interface [polypeptide binding]; other site 634459000465 phosphorylation site [posttranslational modification] 634459000466 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 634459000467 ATP binding site [chemical binding]; other site 634459000468 Mg2+ binding site [ion binding]; other site 634459000469 G-X-G motif; other site 634459000470 Response regulator receiver domain; Region: Response_reg; pfam00072 634459000471 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 634459000472 active site 634459000473 phosphorylation site [posttranslational modification] 634459000474 intermolecular recognition site; other site 634459000475 dimerization interface [polypeptide binding]; other site 634459000476 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 634459000477 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 634459000478 putative ligand binding site [chemical binding]; other site 634459000479 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 634459000480 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 634459000481 TM-ABC transporter signature motif; other site 634459000482 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 634459000483 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 634459000484 TM-ABC transporter signature motif; other site 634459000485 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 634459000486 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 634459000487 Walker A/P-loop; other site 634459000488 ATP binding site [chemical binding]; other site 634459000489 Q-loop/lid; other site 634459000490 ABC transporter signature motif; other site 634459000491 Walker B; other site 634459000492 D-loop; other site 634459000493 H-loop/switch region; other site 634459000494 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 634459000495 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 634459000496 Walker A/P-loop; other site 634459000497 ATP binding site [chemical binding]; other site 634459000498 Q-loop/lid; other site 634459000499 ABC transporter signature motif; other site 634459000500 Walker B; other site 634459000501 D-loop; other site 634459000502 H-loop/switch region; other site 634459000503 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 634459000504 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 634459000505 Predicted transcriptional regulator [Transcription]; Region: COG2378 634459000506 WYL domain; Region: WYL; pfam13280 634459000507 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 634459000508 active site 634459000509 Int/Topo IB signature motif; other site 634459000510 DNA binding site [nucleotide binding] 634459000511 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459000512 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 634459000513 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459000514 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 634459000515 active site 634459000516 Catalytic domain of Protein Kinases; Region: PKc; cd00180 634459000517 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 634459000518 active site 634459000519 ATP binding site [chemical binding]; other site 634459000520 substrate binding site [chemical binding]; other site 634459000521 activation loop (A-loop); other site 634459000522 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 634459000523 Catalytic domain of Protein Kinases; Region: PKc; cd00180 634459000524 active site 634459000525 ATP binding site [chemical binding]; other site 634459000526 substrate binding site [chemical binding]; other site 634459000527 activation loop (A-loop); other site 634459000528 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 634459000529 active site 634459000530 Int/Topo IB signature motif; other site 634459000531 DNA binding site [nucleotide binding] 634459000532 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 634459000533 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634459000534 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 634459000535 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 634459000536 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 634459000537 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 634459000538 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634459000539 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634459000540 Transposase; Region: HTH_Tnp_1; pfam01527 634459000541 Protein of unknown function DUF45; Region: DUF45; pfam01863 634459000542 hypothetical protein; Provisional; Region: PRK05170 634459000543 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 634459000544 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 634459000545 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459000546 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 634459000547 Walker A/P-loop; other site 634459000548 ATP binding site [chemical binding]; other site 634459000549 Q-loop/lid; other site 634459000550 ABC transporter signature motif; other site 634459000551 Walker B; other site 634459000552 D-loop; other site 634459000553 H-loop/switch region; other site 634459000554 TOBE domain; Region: TOBE_2; pfam08402 634459000555 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 634459000556 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 634459000557 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 634459000558 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 634459000559 multidrug resistance protein MdtN; Provisional; Region: PRK10476 634459000560 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634459000561 HlyD family secretion protein; Region: HlyD_3; pfam13437 634459000562 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 634459000563 hopanoid-associated phosphorylase; Region: HpnG; TIGR03468 634459000564 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 634459000565 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 634459000566 Active site cavity [active] 634459000567 catalytic acid [active] 634459000568 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 634459000569 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 634459000570 active site lid residues [active] 634459000571 substrate binding pocket [chemical binding]; other site 634459000572 catalytic residues [active] 634459000573 substrate-Mg2+ binding site; other site 634459000574 aspartate-rich region 1; other site 634459000575 aspartate-rich region 2; other site 634459000576 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 634459000577 active site lid residues [active] 634459000578 substrate binding pocket [chemical binding]; other site 634459000579 catalytic residues [active] 634459000580 substrate-Mg2+ binding site; other site 634459000581 aspartate-rich region 1; other site 634459000582 aspartate-rich region 2; other site 634459000583 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 634459000584 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 634459000585 active site 634459000586 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 634459000587 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 634459000588 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 634459000589 putative NADP binding site [chemical binding]; other site 634459000590 putative substrate binding site [chemical binding]; other site 634459000591 active site 634459000592 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 634459000593 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 634459000594 prephenate dehydrogenase; Validated; Region: PRK08507 634459000595 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 634459000596 TPR motif; other site 634459000597 TPR repeat; Region: TPR_11; pfam13414 634459000598 binding surface 634459000599 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634459000600 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459000601 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 634459000602 dimerization interface [polypeptide binding]; other site 634459000603 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 634459000604 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 634459000605 dimer interface [polypeptide binding]; other site 634459000606 decamer (pentamer of dimers) interface [polypeptide binding]; other site 634459000607 catalytic triad [active] 634459000608 peroxidatic and resolving cysteines [active] 634459000609 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 634459000610 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 634459000611 Uncharacterized conserved protein [Function unknown]; Region: COG2353 634459000612 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 634459000613 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 634459000614 putative active site [active] 634459000615 metal binding site [ion binding]; metal-binding site 634459000616 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 634459000617 dimer interface [polypeptide binding]; other site 634459000618 substrate binding site [chemical binding]; other site 634459000619 metal binding sites [ion binding]; metal-binding site 634459000620 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 634459000621 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459000622 Walker A/P-loop; other site 634459000623 ATP binding site [chemical binding]; other site 634459000624 Q-loop/lid; other site 634459000625 ABC transporter signature motif; other site 634459000626 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634459000627 ABC transporter; Region: ABC_tran_2; pfam12848 634459000628 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634459000629 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 634459000630 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 634459000631 Coenzyme A binding pocket [chemical binding]; other site 634459000632 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 634459000633 VacJ like lipoprotein; Region: VacJ; cl01073 634459000634 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 634459000635 putative metal binding site [ion binding]; other site 634459000636 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 634459000637 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 634459000638 HSP70 interaction site [polypeptide binding]; other site 634459000639 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 634459000640 epoxyqueuosine reductase; Region: TIGR00276 634459000641 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 634459000642 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 634459000643 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 634459000644 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 634459000645 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 634459000646 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 634459000647 substrate binding site [chemical binding]; other site 634459000648 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 634459000649 FAD binding site [chemical binding]; other site 634459000650 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 634459000651 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 634459000652 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 634459000653 homodimer interface [polypeptide binding]; other site 634459000654 NADP binding site [chemical binding]; other site 634459000655 substrate binding site [chemical binding]; other site 634459000656 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 634459000657 Protein of unknown function, DUF482; Region: DUF482; pfam04339 634459000658 This group of proteins belong to a large family of YjgF/YER057c/UK114-like 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...; Region: YjgF_YER057c_UK114_like_1; cd02199 634459000659 homotrimer interaction site [polypeptide binding]; other site 634459000660 putative active site [active] 634459000661 TSCPD domain; Region: TSCPD; pfam12637 634459000662 NADH dehydrogenase; Validated; Region: PRK08183 634459000663 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 634459000664 mce related protein; Region: MCE; pfam02470 634459000665 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 634459000666 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 634459000667 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 634459000668 active site 634459000669 motif I; other site 634459000670 motif II; other site 634459000671 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 634459000672 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 634459000673 active site 634459000674 homotetramer interface [polypeptide binding]; other site 634459000675 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 634459000676 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 634459000677 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 634459000678 Probable Catalytic site; other site 634459000679 metal-binding site 634459000680 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634459000681 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 634459000682 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_15; cd04673 634459000683 nudix motif; other site 634459000684 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 634459000685 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 634459000686 active site 634459000687 catalytic tetrad [active] 634459000688 Helix-turn-helix domain; Region: HTH_17; pfam12728 634459000689 excinuclease ABC subunit B; Provisional; Region: PRK05298 634459000690 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 634459000691 ATP binding site [chemical binding]; other site 634459000692 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 634459000693 nucleotide binding region [chemical binding]; other site 634459000694 ATP-binding site [chemical binding]; other site 634459000695 Ultra-violet resistance protein B; Region: UvrB; pfam12344 634459000696 UvrB/uvrC motif; Region: UVR; pfam02151 634459000697 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 634459000698 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 634459000699 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 634459000700 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 634459000701 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 634459000702 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 634459000703 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 634459000704 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 634459000705 active site 634459000706 motif I; other site 634459000707 motif II; other site 634459000708 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 634459000709 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 634459000710 active site 634459000711 L-asparagine permease; Provisional; Region: PRK15049 634459000712 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 634459000713 active site 634459000714 DNA polymerase IV; Validated; Region: PRK02406 634459000715 DNA binding site [nucleotide binding] 634459000716 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 634459000717 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 634459000718 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 634459000719 quinone interaction residues [chemical binding]; other site 634459000720 active site 634459000721 catalytic residues [active] 634459000722 FMN binding site [chemical binding]; other site 634459000723 substrate binding site [chemical binding]; other site 634459000724 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 634459000725 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 634459000726 active site 634459000727 motif I; other site 634459000728 motif II; other site 634459000729 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 634459000730 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 634459000731 nudix motif; other site 634459000732 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 634459000733 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 634459000734 putative active site [active] 634459000735 metal binding site [ion binding]; metal-binding site 634459000736 homodimer binding site [polypeptide binding]; other site 634459000737 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 634459000738 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 634459000739 Cell division protein ZapA; Region: ZapA; cl01146 634459000740 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 634459000741 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 634459000742 putative active site; other site 634459000743 catalytic residue [active] 634459000744 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 634459000745 thiamine phosphate binding site [chemical binding]; other site 634459000746 active site 634459000747 pyrophosphate binding site [ion binding]; other site 634459000748 Prophage antirepressor [Transcription]; Region: COG3617 634459000749 BRO family, N-terminal domain; Region: Bro-N; smart01040 634459000750 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 634459000751 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 634459000752 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 634459000753 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459000754 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 634459000755 Transposase; Region: DDE_Tnp_ISL3; pfam01610 634459000756 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459000757 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459000758 Transposase; Region: DDE_Tnp_ISL3; pfam01610 634459000759 Protein of unknown function (DUF2501); Region: DUF2501; cl08197 634459000760 Fasciclin domain; Region: Fasciclin; cl02663 634459000761 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 634459000762 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 634459000763 motif 1; other site 634459000764 dimer interface [polypeptide binding]; other site 634459000765 active site 634459000766 motif 2; other site 634459000767 motif 3; other site 634459000768 Radical SAM superfamily; Region: Radical_SAM; pfam04055 634459000769 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 634459000770 FeS/SAM binding site; other site 634459000771 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 634459000772 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 634459000773 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 634459000774 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 634459000775 active site 634459000776 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 634459000777 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 634459000778 Uncharacterized conserved protein [Function unknown]; Region: COG2127 634459000779 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 634459000780 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 634459000781 Walker A motif; other site 634459000782 ATP binding site [chemical binding]; other site 634459000783 Walker B motif; other site 634459000784 arginine finger; other site 634459000785 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 634459000786 Walker A motif; other site 634459000787 ATP binding site [chemical binding]; other site 634459000788 Walker B motif; other site 634459000789 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 634459000790 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 634459000791 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 634459000792 Putative transcriptional regulator [Transcription]; Region: COG1678 634459000793 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 634459000794 Shikimate kinase; Region: SKI; pfam01202 634459000795 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; cl10015 634459000796 homotrimer interaction site [polypeptide binding]; other site 634459000797 putative active site [active] 634459000798 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 634459000799 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 634459000800 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634459000801 HAMP domain; Region: HAMP; pfam00672 634459000802 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 634459000803 dimer interface [polypeptide binding]; other site 634459000804 phosphorylation site [posttranslational modification] 634459000805 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 634459000806 ATP binding site [chemical binding]; other site 634459000807 Mg2+ binding site [ion binding]; other site 634459000808 G-X-G motif; other site 634459000809 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634459000810 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 634459000811 active site 634459000812 phosphorylation site [posttranslational modification] 634459000813 intermolecular recognition site; other site 634459000814 dimerization interface [polypeptide binding]; other site 634459000815 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 634459000816 DNA binding site [nucleotide binding] 634459000817 GrpE; Region: GrpE; pfam01025 634459000818 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 634459000819 dimer interface [polypeptide binding]; other site 634459000820 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 634459000821 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 634459000822 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 634459000823 nucleotide binding site [chemical binding]; other site 634459000824 NEF interaction site [polypeptide binding]; other site 634459000825 SBD interface [polypeptide binding]; other site 634459000826 chaperone protein DnaJ; Provisional; Region: PRK10767 634459000827 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 634459000828 HSP70 interaction site [polypeptide binding]; other site 634459000829 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 634459000830 Zn binding sites [ion binding]; other site 634459000831 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 634459000832 dimer interface [polypeptide binding]; other site 634459000833 dihydrodipicolinate reductase; Provisional; Region: PRK00048 634459000834 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 634459000835 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 634459000836 S-adenosylmethionine synthetase; Validated; Region: PRK05250 634459000837 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 634459000838 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 634459000839 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 634459000840 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 634459000841 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 634459000842 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 634459000843 purine monophosphate binding site [chemical binding]; other site 634459000844 dimer interface [polypeptide binding]; other site 634459000845 putative catalytic residues [active] 634459000846 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 634459000847 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 634459000848 EamA-like transporter family; Region: EamA; pfam00892 634459000849 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 634459000850 DALR anticodon binding domain; Region: DALR_1; pfam05746 634459000851 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 634459000852 dimer interface [polypeptide binding]; other site 634459000853 motif 1; other site 634459000854 active site 634459000855 motif 2; other site 634459000856 motif 3; other site 634459000857 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 634459000858 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 634459000859 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 634459000860 non-specific DNA binding site [nucleotide binding]; other site 634459000861 salt bridge; other site 634459000862 sequence-specific DNA binding site [nucleotide binding]; other site 634459000863 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 634459000864 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 634459000865 putative active site [active] 634459000866 catalytic triad [active] 634459000867 putative dimer interface [polypeptide binding]; other site 634459000868 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 634459000869 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 634459000870 metal binding site 2 [ion binding]; metal-binding site 634459000871 putative DNA binding helix; other site 634459000872 metal binding site 1 [ion binding]; metal-binding site 634459000873 dimer interface [polypeptide binding]; other site 634459000874 structural Zn2+ binding site [ion binding]; other site 634459000875 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 634459000876 CPxP motif; other site 634459000877 transcription termination factor Rho; Provisional; Region: rho; PRK09376 634459000878 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 634459000879 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 634459000880 RNA binding site [nucleotide binding]; other site 634459000881 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 634459000882 multimer interface [polypeptide binding]; other site 634459000883 Walker A motif; other site 634459000884 ATP binding site [chemical binding]; other site 634459000885 Walker B motif; other site 634459000886 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 634459000887 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 634459000888 oligomer interface [polypeptide binding]; other site 634459000889 Cl binding site [ion binding]; other site 634459000890 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 634459000891 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 634459000892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459000893 catalytic residue [active] 634459000894 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 634459000895 substrate binding site [chemical binding]; other site 634459000896 active site 634459000897 catalytic residues [active] 634459000898 heterodimer interface [polypeptide binding]; other site 634459000899 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 634459000900 HerA helicase [Replication, recombination, and repair]; Region: COG0433 634459000901 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 634459000902 Walker A motif; other site 634459000903 ATP binding site [chemical binding]; other site 634459000904 Walker B motif; other site 634459000905 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 634459000906 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 634459000907 dimer interface [polypeptide binding]; other site 634459000908 motif 1; other site 634459000909 active site 634459000910 motif 2; other site 634459000911 motif 3; other site 634459000912 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 634459000913 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 634459000914 GDP-binding site [chemical binding]; other site 634459000915 ACT binding site; other site 634459000916 IMP binding site; other site 634459000917 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 634459000918 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 634459000919 active site 634459000920 phosphorylation site [posttranslational modification] 634459000921 intermolecular recognition site; other site 634459000922 dimerization interface [polypeptide binding]; other site 634459000923 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 634459000924 DNA binding site [nucleotide binding] 634459000925 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 634459000926 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 634459000927 dimer interface [polypeptide binding]; other site 634459000928 phosphorylation site [posttranslational modification] 634459000929 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 634459000930 ATP binding site [chemical binding]; other site 634459000931 Mg2+ binding site [ion binding]; other site 634459000932 G-X-G motif; other site 634459000933 PBP superfamily domain; Region: PBP_like_2; cl17296 634459000934 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 634459000935 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 634459000936 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 634459000937 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 634459000938 catalytic core [active] 634459000939 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 634459000940 Domain of unknown function DUF21; Region: DUF21; pfam01595 634459000941 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 634459000942 Transporter associated domain; Region: CorC_HlyC; smart01091 634459000943 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 634459000944 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 634459000945 NADP binding site [chemical binding]; other site 634459000946 dimer interface [polypeptide binding]; other site 634459000947 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 634459000948 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 634459000949 putative active site [active] 634459000950 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634459000951 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 634459000952 Walker A/P-loop; other site 634459000953 ATP binding site [chemical binding]; other site 634459000954 Q-loop/lid; other site 634459000955 ABC transporter signature motif; other site 634459000956 Walker B; other site 634459000957 D-loop; other site 634459000958 H-loop/switch region; other site 634459000959 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 634459000960 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634459000961 HlyD family secretion protein; Region: HlyD_3; pfam13437 634459000962 Hint domain; Region: Hint_2; pfam13403 634459000963 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 634459000964 classical (c) SDRs; Region: SDR_c; cd05233 634459000965 NAD(P) binding site [chemical binding]; other site 634459000966 active site 634459000967 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 634459000968 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 634459000969 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 634459000970 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 634459000971 homodimer interface [polypeptide binding]; other site 634459000972 metal binding site [ion binding]; metal-binding site 634459000973 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 634459000974 homodimer interface [polypeptide binding]; other site 634459000975 active site 634459000976 putative chemical substrate binding site [chemical binding]; other site 634459000977 metal binding site [ion binding]; metal-binding site 634459000978 Protein of unknown function (DUF2501); Region: DUF2501; cl08197 634459000979 heat shock protein 90; Provisional; Region: PRK05218 634459000980 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 634459000981 ATP binding site [chemical binding]; other site 634459000982 Mg2+ binding site [ion binding]; other site 634459000983 G-X-G motif; other site 634459000984 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 634459000985 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 634459000986 DNA binding site [nucleotide binding] 634459000987 active site 634459000988 Int/Topo IB signature motif; other site 634459000989 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 634459000990 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459000991 CotH protein; Region: CotH; pfam08757 634459000992 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 634459000993 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 634459000994 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 634459000995 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 634459000996 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 634459000997 active site 634459000998 substrate binding site [chemical binding]; other site 634459000999 Mg2+ binding site [ion binding]; other site 634459001000 hypothetical protein; Provisional; Region: PRK09272 634459001001 hypothetical protein; Provisional; Region: PRK10316 634459001002 YfdX protein; Region: YfdX; pfam10938 634459001003 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 634459001004 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 634459001005 sequence-specific DNA binding site [nucleotide binding]; other site 634459001006 salt bridge; other site 634459001007 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 634459001008 Domain of unknown function (DUF955); Region: DUF955; pfam06114 634459001009 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 634459001010 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 634459001011 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 634459001012 methylcitrate synthase; Provisional; Region: PRK12351 634459001013 oxalacetate binding site [chemical binding]; other site 634459001014 citrylCoA binding site [chemical binding]; other site 634459001015 coenzyme A binding site [chemical binding]; other site 634459001016 catalytic triad [active] 634459001017 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 634459001018 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 634459001019 tetramer interface [polypeptide binding]; other site 634459001020 active site 634459001021 Mg2+/Mn2+ binding site [ion binding]; other site 634459001022 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 634459001023 acetyl-CoA synthetase; Provisional; Region: PRK00174 634459001024 acyl-activating enzyme (AAE) consensus motif; other site 634459001025 AMP binding site [chemical binding]; other site 634459001026 active site 634459001027 CoA binding site [chemical binding]; other site 634459001028 putative sialic acid transporter; Region: 2A0112; TIGR00891 634459001029 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 634459001030 putative substrate translocation pore; other site 634459001031 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 634459001032 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 634459001033 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 634459001034 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 634459001035 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 634459001036 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 634459001037 dimer interface [polypeptide binding]; other site 634459001038 anticodon binding site; other site 634459001039 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 634459001040 homodimer interface [polypeptide binding]; other site 634459001041 motif 1; other site 634459001042 active site 634459001043 motif 2; other site 634459001044 GAD domain; Region: GAD; pfam02938 634459001045 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 634459001046 active site 634459001047 motif 3; other site 634459001048 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 634459001049 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 634459001050 tetramer interface [polypeptide binding]; other site 634459001051 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459001052 catalytic residue [active] 634459001053 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 634459001054 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 634459001055 5S rRNA interface [nucleotide binding]; other site 634459001056 CTC domain interface [polypeptide binding]; other site 634459001057 L16 interface [polypeptide binding]; other site 634459001058 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 634459001059 putative active site [active] 634459001060 catalytic residue [active] 634459001061 GTP-binding protein YchF; Reviewed; Region: PRK09601 634459001062 YchF GTPase; Region: YchF; cd01900 634459001063 G1 box; other site 634459001064 GTP/Mg2+ binding site [chemical binding]; other site 634459001065 Switch I region; other site 634459001066 G2 box; other site 634459001067 Switch II region; other site 634459001068 G3 box; other site 634459001069 G4 box; other site 634459001070 G5 box; other site 634459001071 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 634459001072 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 634459001073 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 634459001074 putative catalytic cysteine [active] 634459001075 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 634459001076 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 634459001077 active site 634459001078 (T/H)XGH motif; other site 634459001079 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 634459001080 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 634459001081 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 634459001082 Rhodanese-like domain; Region: Rhodanese; pfam00581 634459001083 active site residue [active] 634459001084 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 634459001085 active site residue [active] 634459001086 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634459001087 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459001088 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 634459001089 putative dimerization interface [polypeptide binding]; other site 634459001090 putative substrate binding pocket [chemical binding]; other site 634459001091 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 634459001092 acetolactate synthase; Reviewed; Region: PRK08617 634459001093 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 634459001094 PYR/PP interface [polypeptide binding]; other site 634459001095 dimer interface [polypeptide binding]; other site 634459001096 TPP binding site [chemical binding]; other site 634459001097 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634459001098 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 634459001099 TPP-binding site [chemical binding]; other site 634459001100 benzoylformate decarboxylase; Reviewed; Region: PRK07092 634459001101 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 634459001102 PYR/PP interface [polypeptide binding]; other site 634459001103 dimer interface [polypeptide binding]; other site 634459001104 TPP binding site [chemical binding]; other site 634459001105 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634459001106 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 634459001107 TPP-binding site [chemical binding]; other site 634459001108 dimer interface [polypeptide binding]; other site 634459001109 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 634459001110 Cysteine-rich domain; Region: CCG; pfam02754 634459001111 Cysteine-rich domain; Region: CCG; pfam02754 634459001112 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 634459001113 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 634459001114 4Fe-4S binding domain; Region: Fer4; pfam00037 634459001115 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 634459001116 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 634459001117 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 634459001118 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 634459001119 hinge; other site 634459001120 active site 634459001121 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 634459001122 trimer interface [polypeptide binding]; other site 634459001123 active site 634459001124 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634459001125 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 634459001126 putative active site [active] 634459001127 YdjC motif; other site 634459001128 Mg binding site [ion binding]; other site 634459001129 putative homodimer interface [polypeptide binding]; other site 634459001130 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 634459001131 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 634459001132 B12 binding site [chemical binding]; other site 634459001133 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 634459001134 FeS/SAM binding site; other site 634459001135 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 634459001136 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 634459001137 ligand binding site; other site 634459001138 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 634459001139 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 634459001140 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 634459001141 TPP-binding site; other site 634459001142 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 634459001143 PYR/PP interface [polypeptide binding]; other site 634459001144 dimer interface [polypeptide binding]; other site 634459001145 TPP binding site [chemical binding]; other site 634459001146 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634459001147 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 634459001148 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 634459001149 FeS/SAM binding site; other site 634459001150 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 634459001151 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 634459001152 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 634459001153 Domain of unknown function DUF21; Region: DUF21; pfam01595 634459001154 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 634459001155 Transporter associated domain; Region: CorC_HlyC; smart01091 634459001156 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 634459001157 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 634459001158 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634459001159 catalytic residue [active] 634459001160 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 634459001161 Fe-S cluster binding site [ion binding]; other site 634459001162 active site 634459001163 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 634459001164 binding surface 634459001165 TPR motif; other site 634459001166 Tetratricopeptide repeat; Region: TPR_12; pfam13424 634459001167 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 634459001168 TPR motif; other site 634459001169 TPR repeat; Region: TPR_11; pfam13414 634459001170 binding surface 634459001171 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 634459001172 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634459001173 NAD(P) binding site [chemical binding]; other site 634459001174 active site 634459001175 Predicted membrane protein [Function unknown]; Region: COG1238 634459001176 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 634459001177 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 634459001178 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 634459001179 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 634459001180 Walker A/P-loop; other site 634459001181 ATP binding site [chemical binding]; other site 634459001182 Q-loop/lid; other site 634459001183 ABC transporter signature motif; other site 634459001184 Walker B; other site 634459001185 D-loop; other site 634459001186 H-loop/switch region; other site 634459001187 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 634459001188 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 634459001189 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 634459001190 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 634459001191 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634459001192 active site 634459001193 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 634459001194 catalytic core [active] 634459001195 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 634459001196 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 634459001197 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634459001198 short chain dehydrogenase; Provisional; Region: PRK12744 634459001199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634459001200 NAD(P) binding site [chemical binding]; other site 634459001201 active site 634459001202 transcriptional regulator; Provisional; Region: PRK10632 634459001203 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459001204 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 634459001205 putative effector binding pocket; other site 634459001206 putative dimerization interface [polypeptide binding]; other site 634459001207 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 634459001208 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 634459001209 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 634459001210 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 634459001211 N-terminal plug; other site 634459001212 ligand-binding site [chemical binding]; other site 634459001213 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 634459001214 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 634459001215 intersubunit interface [polypeptide binding]; other site 634459001216 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 634459001217 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 634459001218 putative PBP binding regions; other site 634459001219 ABC-ATPase subunit interface; other site 634459001220 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 634459001221 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 634459001222 Walker A/P-loop; other site 634459001223 ATP binding site [chemical binding]; other site 634459001224 Q-loop/lid; other site 634459001225 ABC transporter signature motif; other site 634459001226 Walker B; other site 634459001227 D-loop; other site 634459001228 H-loop/switch region; other site 634459001229 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 634459001230 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 634459001231 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 634459001232 active site 634459001233 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 634459001234 nucleotide binding site [chemical binding]; other site 634459001235 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 634459001236 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 634459001237 putative active site [active] 634459001238 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u1; cd11493 634459001239 Na binding site [ion binding]; other site 634459001240 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 634459001241 long tail fiber, proximal subunit; Provisional; Region: 34; PHA02584 634459001242 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459001243 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459001244 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459001245 Hint domain; Region: Hint_2; pfam13403 634459001246 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 634459001247 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 634459001248 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 634459001249 DNA binding residues [nucleotide binding] 634459001250 dimerization interface [polypeptide binding]; other site 634459001251 Hint domain; Region: Hint_2; pfam13403 634459001252 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 634459001253 DNA photolyase; Region: DNA_photolyase; pfam00875 634459001254 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 634459001255 SelR domain; Region: SelR; pfam01641 634459001256 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 634459001257 Domain of unknown function DUF20; Region: UPF0118; pfam01594 634459001258 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 634459001259 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 634459001260 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 634459001261 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459001262 homodimer interface [polypeptide binding]; other site 634459001263 catalytic residue [active] 634459001264 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634459001265 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459001266 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459001267 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634459001268 Hint domain; Region: Hint_2; pfam13403 634459001269 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 634459001270 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 634459001271 dimerization interface [polypeptide binding]; other site 634459001272 DPS ferroxidase diiron center [ion binding]; other site 634459001273 ion pore; other site 634459001274 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 634459001275 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 634459001276 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 634459001277 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 634459001278 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 634459001279 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 634459001280 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634459001281 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459001282 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 634459001283 dimerization interface [polypeptide binding]; other site 634459001284 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 634459001285 methylamine dehydrogenase (amicyanin) heavy chain; Region: TTQ_MADH_Hv; TIGR02658 634459001286 Methylamine utilisation protein MauE; Region: MauE; pfam07291 634459001287 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 634459001288 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 634459001289 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 634459001290 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 634459001291 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 634459001292 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 634459001293 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 634459001294 active site 634459001295 catalytic tetrad [active] 634459001296 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634459001297 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459001298 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 634459001299 dimerization interface [polypeptide binding]; other site 634459001300 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 634459001301 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634459001302 NAD binding site [chemical binding]; other site 634459001303 catalytic residues [active] 634459001304 substrate binding site [chemical binding]; other site 634459001305 Cytochrome c; Region: Cytochrom_C; cl11414 634459001306 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634459001307 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 634459001308 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634459001309 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 634459001310 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 634459001311 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634459001312 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634459001313 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 634459001314 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 634459001315 catalytic loop [active] 634459001316 iron binding site [ion binding]; other site 634459001317 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 634459001318 Protein of unknown function (DUF563); Region: DUF563; pfam04577 634459001319 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 634459001320 S-adenosylmethionine binding site [chemical binding]; other site 634459001321 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 634459001322 Hint domain; Region: Hint_2; pfam13403 634459001323 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 634459001324 putative substrate translocation pore; other site 634459001325 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634459001326 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 634459001327 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 634459001328 Predicted integral membrane protein [Function unknown]; Region: COG0762 634459001329 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 634459001330 Protein of unknown function (DUF805); Region: DUF805; pfam05656 634459001331 CHRD domain; Region: CHRD; pfam07452 634459001332 Predicted membrane protein [Function unknown]; Region: COG3650 634459001333 META domain; Region: META; pfam03724 634459001334 Hint domain; Region: Hint_2; pfam13403 634459001335 T5orf172 domain; Region: T5orf172; pfam10544 634459001336 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 634459001337 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 634459001338 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 634459001339 N-terminal plug; other site 634459001340 ligand-binding site [chemical binding]; other site 634459001341 Cytochrome c; Region: Cytochrom_C; pfam00034 634459001342 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 634459001343 FAD dependent oxidoreductase; Region: DAO; pfam01266 634459001344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634459001345 NmrA-like family; Region: NmrA; pfam05368 634459001346 NAD(P) binding site [chemical binding]; other site 634459001347 active site 634459001348 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 634459001349 Hint domain; Region: Hint_2; pfam13403 634459001350 Hint domain; Region: Hint_2; pfam13403 634459001351 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 634459001352 Hint domain; Region: Hint_2; pfam13403 634459001353 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 634459001354 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 634459001355 non-specific DNA binding site [nucleotide binding]; other site 634459001356 salt bridge; other site 634459001357 sequence-specific DNA binding site [nucleotide binding]; other site 634459001358 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 634459001359 Catalytic site [active] 634459001360 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 634459001361 Hint domain; Region: Hint_2; pfam13403 634459001362 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 634459001363 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 634459001364 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 634459001365 DNA-binding interface [nucleotide binding]; DNA binding site 634459001366 Hint domain; Region: Hint_2; pfam13403 634459001367 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 634459001368 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 634459001369 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 634459001370 FeS/SAM binding site; other site 634459001371 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 634459001372 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 634459001373 Terminase-like family; Region: Terminase_6; pfam03237 634459001374 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 634459001375 hypothetical protein; Validated; Region: PRK01415 634459001376 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 634459001377 active site residue [active] 634459001378 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 634459001379 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 634459001380 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 634459001381 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 634459001382 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 634459001383 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 634459001384 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 634459001385 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459001386 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 634459001387 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 634459001388 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 634459001389 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634459001390 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 634459001391 Phosphotransferase enzyme family; Region: APH; pfam01636 634459001392 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 634459001393 substrate binding site [chemical binding]; other site 634459001394 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 634459001395 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 634459001396 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 634459001397 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 634459001398 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 634459001399 putative active site [active] 634459001400 putative substrate binding site [chemical binding]; other site 634459001401 putative cosubstrate binding site; other site 634459001402 catalytic site [active] 634459001403 Uncharacterized conserved protein [Function unknown]; Region: COG3189 634459001404 Predicted transcriptional regulator [Transcription]; Region: COG1959 634459001405 Transcriptional regulator; Region: Rrf2; cl17282 634459001406 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634459001407 malonic semialdehyde reductase; Provisional; Region: PRK10538 634459001408 NAD(P) binding site [chemical binding]; other site 634459001409 active site 634459001410 CrcB-like protein; Region: CRCB; cl09114 634459001411 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 634459001412 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 634459001413 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 634459001414 dinuclear metal binding motif [ion binding]; other site 634459001415 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 634459001416 Hint domain; Region: Hint_2; pfam13403 634459001417 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 634459001418 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634459001419 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 634459001420 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 634459001421 active site 634459001422 Zn binding site [ion binding]; other site 634459001423 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634459001424 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 634459001425 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634459001426 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634459001427 Coenzyme A transferase; Region: CoA_trans; smart00882 634459001428 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459001429 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459001430 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459001431 Coenzyme A transferase; Region: CoA_trans; cl17247 634459001432 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 634459001433 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 634459001434 MOFRL family; Region: MOFRL; pfam05161 634459001435 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 634459001436 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 634459001437 active site 634459001438 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 634459001439 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634459001440 NAD(P) binding site [chemical binding]; other site 634459001441 active site 634459001442 Protein of unknown function (DUF993); Region: DUF993; pfam06187 634459001443 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 634459001444 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 634459001445 DNA interaction; other site 634459001446 Metal-binding active site; metal-binding site 634459001447 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 634459001448 Electron transfer flavoprotein domain; Region: ETF; pfam01012 634459001449 Ligand binding site [chemical binding]; other site 634459001450 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459001451 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459001452 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459001453 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 634459001454 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 634459001455 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 634459001456 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634459001457 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 634459001458 NAD(P) binding site [chemical binding]; other site 634459001459 catalytic residues [active] 634459001460 choline dehydrogenase; Validated; Region: PRK02106 634459001461 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 634459001462 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 634459001463 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 634459001464 putative substrate translocation pore; other site 634459001465 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634459001466 Hint domain; Region: Hint_2; pfam13403 634459001467 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634459001468 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459001469 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459001470 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459001471 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 634459001472 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 634459001473 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 634459001474 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 634459001475 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 634459001476 tetramer interface [polypeptide binding]; other site 634459001477 TPP-binding site [chemical binding]; other site 634459001478 heterodimer interface [polypeptide binding]; other site 634459001479 phosphorylation loop region [posttranslational modification] 634459001480 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 634459001481 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 634459001482 alpha subunit interface [polypeptide binding]; other site 634459001483 TPP binding site [chemical binding]; other site 634459001484 heterodimer interface [polypeptide binding]; other site 634459001485 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634459001486 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 634459001487 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 634459001488 E3 interaction surface; other site 634459001489 lipoyl attachment site [posttranslational modification]; other site 634459001490 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 634459001491 catalytic site [active] 634459001492 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 634459001493 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 634459001494 putative dimer interface [polypeptide binding]; other site 634459001495 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 634459001496 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634459001497 FOG: WD40 repeat [General function prediction only]; Region: COG2319 634459001498 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 634459001499 structural tetrad; other site 634459001500 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 634459001501 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 634459001502 P-loop, Walker A motif; other site 634459001503 Base recognition motif; other site 634459001504 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 634459001505 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 634459001506 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 634459001507 putative ion selectivity filter; other site 634459001508 putative pore gating glutamate residue; other site 634459001509 putative H+/Cl- coupling transport residue; other site 634459001510 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 634459001511 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 634459001512 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 634459001513 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 634459001514 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634459001515 acyl-CoA esterase; Provisional; Region: PRK10673 634459001516 PGAP1-like protein; Region: PGAP1; pfam07819 634459001517 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 634459001518 Ligand Binding Site [chemical binding]; other site 634459001519 Predicted membrane protein [Function unknown]; Region: COG1297 634459001520 putative oligopeptide transporter, OPT family; Region: TIGR00733 634459001521 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 634459001522 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 634459001523 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 634459001524 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 634459001525 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 634459001526 ATP binding site [chemical binding]; other site 634459001527 substrate interface [chemical binding]; other site 634459001528 Bacterial SH3 domain; Region: SH3_4; pfam06347 634459001529 Bacterial SH3 domain; Region: SH3_4; pfam06347 634459001530 pyruvate kinase; Provisional; Region: PRK06247 634459001531 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 634459001532 domain interfaces; other site 634459001533 active site 634459001534 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 634459001535 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 634459001536 putative substrate translocation pore; other site 634459001537 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634459001538 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 634459001539 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 634459001540 G1 box; other site 634459001541 putative GEF interaction site [polypeptide binding]; other site 634459001542 GTP/Mg2+ binding site [chemical binding]; other site 634459001543 Switch I region; other site 634459001544 G2 box; other site 634459001545 G3 box; other site 634459001546 Switch II region; other site 634459001547 G4 box; other site 634459001548 G5 box; other site 634459001549 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 634459001550 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 634459001551 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 634459001552 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634459001553 hydroxyglutarate oxidase; Provisional; Region: PRK11728 634459001554 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 634459001555 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634459001556 isocitrate dehydrogenase; Validated; Region: PRK08299 634459001557 hypothetical protein; Provisional; Region: PRK08912 634459001558 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 634459001559 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459001560 homodimer interface [polypeptide binding]; other site 634459001561 catalytic residue [active] 634459001562 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 634459001563 Nitrogen regulatory protein P-II; Region: P-II; smart00938 634459001564 glutamine synthetase; Provisional; Region: glnA; PRK09469 634459001565 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 634459001566 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 634459001567 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634459001568 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 634459001569 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 634459001570 Trp docking motif [polypeptide binding]; other site 634459001571 putative active site [active] 634459001572 Predicted transcriptional regulator [Transcription]; Region: COG2932 634459001573 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 634459001574 Catalytic site [active] 634459001575 GTP-binding protein LepA; Provisional; Region: PRK05433 634459001576 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 634459001577 G1 box; other site 634459001578 putative GEF interaction site [polypeptide binding]; other site 634459001579 GTP/Mg2+ binding site [chemical binding]; other site 634459001580 Switch I region; other site 634459001581 G2 box; other site 634459001582 G3 box; other site 634459001583 Switch II region; other site 634459001584 G4 box; other site 634459001585 G5 box; other site 634459001586 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 634459001587 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 634459001588 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 634459001589 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 634459001590 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 634459001591 Methyltransferase domain; Region: Methyltransf_23; pfam13489 634459001592 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 634459001593 S-adenosylmethionine binding site [chemical binding]; other site 634459001594 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 634459001595 DEAD-like helicases superfamily; Region: DEXDc; smart00487 634459001596 ATP binding site [chemical binding]; other site 634459001597 Mg++ binding site [ion binding]; other site 634459001598 motif III; other site 634459001599 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 634459001600 nucleotide binding region [chemical binding]; other site 634459001601 ATP-binding site [chemical binding]; other site 634459001602 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 634459001603 putative catalytic site [active] 634459001604 putative metal binding site [ion binding]; other site 634459001605 putative phosphate binding site [ion binding]; other site 634459001606 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_cladeB; cd00884 634459001607 active site clefts [active] 634459001608 zinc binding site [ion binding]; other site 634459001609 dimer interface [polypeptide binding]; other site 634459001610 LabA_like proteins; Region: LabA; cd10911 634459001611 Uncharacterized conserved protein [Function unknown]; Region: COG1432 634459001612 putative metal binding site [ion binding]; other site 634459001613 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 634459001614 catalytic center binding site [active] 634459001615 ATP binding site [chemical binding]; other site 634459001616 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 634459001617 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 634459001618 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 634459001619 Zn2+ binding site [ion binding]; other site 634459001620 Mg2+ binding site [ion binding]; other site 634459001621 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 634459001622 synthetase active site [active] 634459001623 NTP binding site [chemical binding]; other site 634459001624 metal binding site [ion binding]; metal-binding site 634459001625 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 634459001626 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 634459001627 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 634459001628 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 634459001629 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 634459001630 Catalytic site [active] 634459001631 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 634459001632 ribonuclease III; Reviewed; Region: rnc; PRK00102 634459001633 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 634459001634 dimerization interface [polypeptide binding]; other site 634459001635 active site 634459001636 metal binding site [ion binding]; metal-binding site 634459001637 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 634459001638 GTPase Era; Reviewed; Region: era; PRK00089 634459001639 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 634459001640 G1 box; other site 634459001641 GTP/Mg2+ binding site [chemical binding]; other site 634459001642 Switch I region; other site 634459001643 G2 box; other site 634459001644 Switch II region; other site 634459001645 G3 box; other site 634459001646 G4 box; other site 634459001647 G5 box; other site 634459001648 KH domain; Region: KH_2; pfam07650 634459001649 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 634459001650 putative nucleotide binding site [chemical binding]; other site 634459001651 uridine monophosphate binding site [chemical binding]; other site 634459001652 homohexameric interface [polypeptide binding]; other site 634459001653 ribosome recycling factor; Reviewed; Region: frr; PRK00083 634459001654 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 634459001655 hinge region; other site 634459001656 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 634459001657 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 634459001658 catalytic residue [active] 634459001659 putative FPP diphosphate binding site; other site 634459001660 putative FPP binding hydrophobic cleft; other site 634459001661 dimer interface [polypeptide binding]; other site 634459001662 putative IPP diphosphate binding site; other site 634459001663 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 634459001664 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 634459001665 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 634459001666 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 634459001667 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 634459001668 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 634459001669 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 634459001670 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 634459001671 active site 634459001672 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 634459001673 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 634459001674 putative substrate binding region [chemical binding]; other site 634459001675 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634459001676 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 634459001677 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634459001678 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634459001679 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634459001680 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634459001681 Surface antigen; Region: Bac_surface_Ag; pfam01103 634459001682 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 634459001683 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 634459001684 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 634459001685 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 634459001686 trimer interface [polypeptide binding]; other site 634459001687 active site 634459001688 UDP-GlcNAc binding site [chemical binding]; other site 634459001689 lipid binding site [chemical binding]; lipid-binding site 634459001690 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 634459001691 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 634459001692 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 634459001693 active site 634459001694 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 634459001695 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 634459001696 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 634459001697 dimer interface [polypeptide binding]; other site 634459001698 active site 634459001699 metal binding site [ion binding]; metal-binding site 634459001700 glutathione binding site [chemical binding]; other site 634459001701 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 634459001702 Ribonuclease P; Region: Ribonuclease_P; pfam00825 634459001703 membrane protein insertase; Provisional; Region: PRK01318 634459001704 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 634459001705 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 634459001706 G1 box; other site 634459001707 GTP/Mg2+ binding site [chemical binding]; other site 634459001708 Switch I region; other site 634459001709 G2 box; other site 634459001710 G3 box; other site 634459001711 Switch II region; other site 634459001712 G4 box; other site 634459001713 G5 box; other site 634459001714 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 634459001715 homohexameric interface [polypeptide binding]; other site 634459001716 feedback inhibition sensing region; other site 634459001717 nucleotide binding site [chemical binding]; other site 634459001718 N-acetyl-L-glutamate binding site [chemical binding]; other site 634459001719 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 634459001720 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 634459001721 trimer interface [polypeptide binding]; other site 634459001722 active site 634459001723 substrate binding site [chemical binding]; other site 634459001724 CoA binding site [chemical binding]; other site 634459001725 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 634459001726 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 634459001727 metal binding site [ion binding]; metal-binding site 634459001728 dimer interface [polypeptide binding]; other site 634459001729 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 634459001730 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 634459001731 dimerization interface 3.5A [polypeptide binding]; other site 634459001732 active site 634459001733 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 634459001734 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 634459001735 putative active site [active] 634459001736 substrate binding site [chemical binding]; other site 634459001737 putative cosubstrate binding site; other site 634459001738 catalytic site [active] 634459001739 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 634459001740 substrate binding site [chemical binding]; other site 634459001741 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 634459001742 active site 634459001743 catalytic residues [active] 634459001744 metal binding site [ion binding]; metal-binding site 634459001745 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 634459001746 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 634459001747 putative dimer interface [polypeptide binding]; other site 634459001748 Protein of unknown function (DUF1150); Region: DUF1150; cl11577 634459001749 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 634459001750 30S subunit binding site; other site 634459001751 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 634459001752 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 634459001753 MOSC domain; Region: MOSC; pfam03473 634459001754 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 634459001755 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 634459001756 Walker A/P-loop; other site 634459001757 ATP binding site [chemical binding]; other site 634459001758 Q-loop/lid; other site 634459001759 ABC transporter signature motif; other site 634459001760 Walker B; other site 634459001761 D-loop; other site 634459001762 H-loop/switch region; other site 634459001763 OstA-like protein; Region: OstA; cl00844 634459001764 OstA-like protein; Region: OstA; cl00844 634459001765 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 634459001766 KpsF/GutQ family protein; Region: kpsF; TIGR00393 634459001767 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 634459001768 putative active site [active] 634459001769 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 634459001770 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 634459001771 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 634459001772 catalytic site [active] 634459001773 putative active site [active] 634459001774 putative substrate binding site [chemical binding]; other site 634459001775 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 634459001776 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 634459001777 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 634459001778 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 634459001779 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 634459001780 short chain dehydrogenase; Provisional; Region: PRK07024 634459001781 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634459001782 NAD(P) binding site [chemical binding]; other site 634459001783 active site 634459001784 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 634459001785 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 634459001786 catalytic site [active] 634459001787 G-X2-G-X-G-K; other site 634459001788 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 634459001789 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 634459001790 putative ribose interaction site [chemical binding]; other site 634459001791 putative ADP binding site [chemical binding]; other site 634459001792 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 634459001793 active site 634459001794 nucleotide binding site [chemical binding]; other site 634459001795 HIGH motif; other site 634459001796 KMSKS motif; other site 634459001797 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 634459001798 dimerization interface [polypeptide binding]; other site 634459001799 putative active cleft [active] 634459001800 replicative DNA helicase; Provisional; Region: PRK09165 634459001801 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 634459001802 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 634459001803 Walker A motif; other site 634459001804 ATP binding site [chemical binding]; other site 634459001805 Walker B motif; other site 634459001806 DNA binding loops [nucleotide binding] 634459001807 Nuclease-related domain; Region: NERD; pfam08378 634459001808 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 634459001809 Mechanosensitive ion channel; Region: MS_channel; pfam00924 634459001810 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 634459001811 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 634459001812 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459001813 Walker A/P-loop; other site 634459001814 ATP binding site [chemical binding]; other site 634459001815 Q-loop/lid; other site 634459001816 ABC transporter signature motif; other site 634459001817 Walker B; other site 634459001818 D-loop; other site 634459001819 H-loop/switch region; other site 634459001820 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 634459001821 Permease; Region: Permease; pfam02405 634459001822 DNA repair protein RadA; Provisional; Region: PRK11823 634459001823 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 634459001824 Walker A motif/ATP binding site; other site 634459001825 ATP binding site [chemical binding]; other site 634459001826 Walker B motif; other site 634459001827 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 634459001828 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 634459001829 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 634459001830 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 634459001831 Proline dehydrogenase; Region: Pro_dh; pfam01619 634459001832 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 634459001833 NAD(P) binding site [chemical binding]; other site 634459001834 catalytic residues [active] 634459001835 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 634459001836 Transcriptional regulators [Transcription]; Region: GntR; COG1802 634459001837 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 634459001838 DNA-binding site [nucleotide binding]; DNA binding site 634459001839 FCD domain; Region: FCD; pfam07729 634459001840 Protein of unknown function (DUF2501); Region: DUF2501; cl08197 634459001841 acetyl-CoA synthetase; Provisional; Region: PRK00174 634459001842 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 634459001843 acyl-activating enzyme (AAE) consensus motif; other site 634459001844 AMP binding site [chemical binding]; other site 634459001845 active site 634459001846 CoA binding site [chemical binding]; other site 634459001847 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 634459001848 FtsJ-like methyltransferase; Region: FtsJ; cl17430 634459001849 Protein of unknown function (DUF423); Region: DUF423; pfam04241 634459001850 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 634459001851 hypothetical protein; Validated; Region: PRK09039 634459001852 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 634459001853 FAD binding domain; Region: FAD_binding_4; pfam01565 634459001854 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 634459001855 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 634459001856 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 634459001857 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 634459001858 active site 634459001859 multifunctional aminopeptidase A; Provisional; Region: PRK00913 634459001860 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 634459001861 interface (dimer of trimers) [polypeptide binding]; other site 634459001862 Substrate-binding/catalytic site; other site 634459001863 Zn-binding sites [ion binding]; other site 634459001864 DNA polymerase III subunit chi; Validated; Region: PRK05728 634459001865 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 634459001866 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 634459001867 active site 634459001868 catalytic tetrad [active] 634459001869 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 634459001870 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 634459001871 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 634459001872 protein binding site [polypeptide binding]; other site 634459001873 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 634459001874 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 634459001875 ATP binding site [chemical binding]; other site 634459001876 putative Mg++ binding site [ion binding]; other site 634459001877 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 634459001878 nucleotide binding region [chemical binding]; other site 634459001879 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 634459001880 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 634459001881 dimerization interface [polypeptide binding]; other site 634459001882 domain crossover interface; other site 634459001883 redox-dependent activation switch; other site 634459001884 ornithine carbamoyltransferase; Provisional; Region: PRK00779 634459001885 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 634459001886 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 634459001887 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 634459001888 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 634459001889 inhibitor-cofactor binding pocket; inhibition site 634459001890 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459001891 catalytic residue [active] 634459001892 RecX family; Region: RecX; pfam02631 634459001893 CHAP domain; Region: CHAP; cl17642 634459001894 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 634459001895 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 634459001896 intersubunit interface [polypeptide binding]; other site 634459001897 active site 634459001898 Zn2+ binding site [ion binding]; other site 634459001899 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 634459001900 Cupin domain; Region: Cupin_2; cl17218 634459001901 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 634459001902 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 634459001903 motif II; other site 634459001904 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 634459001905 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 634459001906 active site 634459001907 Riboflavin kinase; Region: Flavokinase; smart00904 634459001908 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 634459001909 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634459001910 active site 634459001911 HIGH motif; other site 634459001912 nucleotide binding site [chemical binding]; other site 634459001913 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 634459001914 active site 634459001915 KMSKS motif; other site 634459001916 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 634459001917 tRNA binding surface [nucleotide binding]; other site 634459001918 anticodon binding site; other site 634459001919 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 634459001920 lipoprotein signal peptidase; Provisional; Region: PRK14770 634459001921 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 634459001922 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 634459001923 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 634459001924 ATP binding site [chemical binding]; other site 634459001925 Mg2+ binding site [ion binding]; other site 634459001926 G-X-G motif; other site 634459001927 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 634459001928 ATP binding site [chemical binding]; other site 634459001929 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 634459001930 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 634459001931 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 634459001932 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 634459001933 EamA-like transporter family; Region: EamA; pfam00892 634459001934 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 634459001935 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 634459001936 Mg2+ binding site [ion binding]; other site 634459001937 G-X-G motif; other site 634459001938 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 634459001939 anchoring element; other site 634459001940 dimer interface [polypeptide binding]; other site 634459001941 ATP binding site [chemical binding]; other site 634459001942 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 634459001943 active site 634459001944 putative metal-binding site [ion binding]; other site 634459001945 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 634459001946 Rrf2 family protein; Region: rrf2_super; TIGR00738 634459001947 Transcriptional regulator; Region: Rrf2; pfam02082 634459001948 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 634459001949 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 634459001950 dimer interface [polypeptide binding]; other site 634459001951 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459001952 catalytic residue [active] 634459001953 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 634459001954 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 634459001955 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 634459001956 ligand binding site [chemical binding]; other site 634459001957 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 634459001958 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 634459001959 C-terminal peptidase (prc); Region: prc; TIGR00225 634459001960 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 634459001961 protein binding site [polypeptide binding]; other site 634459001962 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 634459001963 Catalytic dyad [active] 634459001964 Exoribonuclease R [Transcription]; Region: VacB; COG0557 634459001965 RNB domain; Region: RNB; pfam00773 634459001966 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 634459001967 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 634459001968 active site 634459001969 interdomain interaction site; other site 634459001970 putative metal-binding site [ion binding]; other site 634459001971 nucleotide binding site [chemical binding]; other site 634459001972 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 634459001973 domain I; other site 634459001974 DNA binding groove [nucleotide binding] 634459001975 phosphate binding site [ion binding]; other site 634459001976 domain II; other site 634459001977 domain III; other site 634459001978 nucleotide binding site [chemical binding]; other site 634459001979 catalytic site [active] 634459001980 domain IV; other site 634459001981 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 634459001982 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 634459001983 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 634459001984 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 634459001985 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 634459001986 DNA protecting protein DprA; Region: dprA; TIGR00732 634459001987 DDE superfamily endonuclease; Region: DDE_5; pfam13546 634459001988 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459001989 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634459001990 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 634459001991 DNA protecting protein DprA; Region: dprA; TIGR00732 634459001992 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 634459001993 dihydroorotase; Validated; Region: pyrC; PRK09357 634459001994 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 634459001995 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 634459001996 active site 634459001997 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 634459001998 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 634459001999 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 634459002000 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 634459002001 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634459002002 active site 634459002003 HIGH motif; other site 634459002004 nucleotide binding site [chemical binding]; other site 634459002005 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 634459002006 active site 634459002007 KMSKS motif; other site 634459002008 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 634459002009 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 634459002010 Competence protein; Region: Competence; pfam03772 634459002011 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 634459002012 Predicted ATPase [General function prediction only]; Region: COG1485 634459002013 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 634459002014 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 634459002015 TPP-binding site [chemical binding]; other site 634459002016 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 634459002017 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 634459002018 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 634459002019 E3 interaction surface; other site 634459002020 lipoyl attachment site [posttranslational modification]; other site 634459002021 e3 binding domain; Region: E3_binding; pfam02817 634459002022 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 634459002023 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 634459002024 E3 interaction surface; other site 634459002025 lipoyl attachment site [posttranslational modification]; other site 634459002026 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 634459002027 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 634459002028 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634459002029 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 634459002030 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 634459002031 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 634459002032 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 634459002033 homotetramer interface [polypeptide binding]; other site 634459002034 ligand binding site [chemical binding]; other site 634459002035 catalytic site [active] 634459002036 NAD binding site [chemical binding]; other site 634459002037 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 634459002038 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 634459002039 putative acyl-acceptor binding pocket; other site 634459002040 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 634459002041 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 634459002042 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 634459002043 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 634459002044 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 634459002045 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 634459002046 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 634459002047 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 634459002048 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 634459002049 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 634459002050 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 634459002051 motif 1; other site 634459002052 active site 634459002053 motif 2; other site 634459002054 motif 3; other site 634459002055 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 634459002056 TraB family; Region: TraB; cl12050 634459002057 Predicted membrane protein [Function unknown]; Region: COG2246 634459002058 GtrA-like protein; Region: GtrA; pfam04138 634459002059 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 634459002060 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 634459002061 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 634459002062 ligand binding site [chemical binding]; other site 634459002063 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 634459002064 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional; Region: PRK14021 634459002065 ADP binding site [chemical binding]; other site 634459002066 magnesium binding site [ion binding]; other site 634459002067 putative shikimate binding site; other site 634459002068 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 634459002069 active site 634459002070 dimer interface [polypeptide binding]; other site 634459002071 metal binding site [ion binding]; metal-binding site 634459002072 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 634459002073 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 634459002074 active site 634459002075 DNA binding site [nucleotide binding] 634459002076 Int/Topo IB signature motif; other site 634459002077 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 634459002078 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 634459002079 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 634459002080 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 634459002081 putative MPT binding site; other site 634459002082 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 634459002083 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634459002084 active site 634459002085 nucleotide binding site [chemical binding]; other site 634459002086 HIGH motif; other site 634459002087 KMSKS motif; other site 634459002088 Predicted integral membrane protein [Function unknown]; Region: COG0392 634459002089 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 634459002090 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 634459002091 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 634459002092 UGMP family protein; Validated; Region: PRK09604 634459002093 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 634459002094 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 634459002095 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 634459002096 domain interfaces; other site 634459002097 active site 634459002098 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 634459002099 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 634459002100 active site 634459002101 preprotein translocase subunit SecB; Validated; Region: PRK05751 634459002102 SecA binding site; other site 634459002103 Preprotein binding site; other site 634459002104 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 634459002105 catalytic core [active] 634459002106 Tim44-like domain; Region: Tim44; pfam04280 634459002107 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 634459002108 DNA methylase; Region: N6_N4_Mtase; pfam01555 634459002109 Haem-binding domain; Region: Haem_bd; pfam14376 634459002110 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 634459002111 Smr domain; Region: Smr; pfam01713 634459002112 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 634459002113 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 634459002114 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 634459002115 Qi binding site; other site 634459002116 intrachain domain interface; other site 634459002117 interchain domain interface [polypeptide binding]; other site 634459002118 heme bH binding site [chemical binding]; other site 634459002119 heme bL binding site [chemical binding]; other site 634459002120 Qo binding site; other site 634459002121 Cytochrome b(C-terminus)/b6/petD: 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_C; cl00193 634459002122 intrachain domain interface; other site 634459002123 interchain domain interface [polypeptide binding]; other site 634459002124 Qi binding site; other site 634459002125 Qo binding site; other site 634459002126 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 634459002127 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 634459002128 Protein of unknown function (DUF4232); Region: DUF4232; pfam14016 634459002129 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 634459002130 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 634459002131 FMN binding site [chemical binding]; other site 634459002132 dimer interface [polypeptide binding]; other site 634459002133 ornithine cyclodeaminase; Validated; Region: PRK07340 634459002134 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 634459002135 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 634459002136 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 634459002137 NAD(P) binding site [chemical binding]; other site 634459002138 catalytic residues [active] 634459002139 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634459002140 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634459002141 WHG domain; Region: WHG; pfam13305 634459002142 Transposase; Region: HTH_Tnp_1; pfam01527 634459002143 HTH-like domain; Region: HTH_21; pfam13276 634459002144 Integrase core domain; Region: rve; pfam00665 634459002145 Integrase core domain; Region: rve_3; pfam13683 634459002146 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459002147 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634459002148 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 634459002149 catalytic residues [active] 634459002150 catalytic nucleophile [active] 634459002151 Presynaptic Site I dimer interface [polypeptide binding]; other site 634459002152 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634459002153 Synaptic Flat tetramer interface [polypeptide binding]; other site 634459002154 Synaptic Site I dimer interface [polypeptide binding]; other site 634459002155 DNA binding site [nucleotide binding] 634459002156 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 634459002157 DNA-binding interface [nucleotide binding]; DNA binding site 634459002158 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 634459002159 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 634459002160 active site 634459002161 DNA binding site [nucleotide binding] 634459002162 Int/Topo IB signature motif; other site 634459002163 integrase; Provisional; Region: PRK09692 634459002164 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 634459002165 active site 634459002166 Int/Topo IB signature motif; other site 634459002167 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cl07889 634459002168 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 634459002169 HicB family; Region: HicB; pfam05534 634459002170 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 634459002171 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 634459002172 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 634459002173 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459002174 Walker A/P-loop; other site 634459002175 ATP binding site [chemical binding]; other site 634459002176 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 634459002177 synthetase active site [active] 634459002178 NTP binding site [chemical binding]; other site 634459002179 metal binding site [ion binding]; metal-binding site 634459002180 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634459002181 Transposase; Region: HTH_Tnp_1; pfam01527 634459002182 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 634459002183 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634459002184 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 634459002185 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634459002186 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 634459002187 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 634459002188 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 634459002189 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 634459002190 HTH-like domain; Region: HTH_21; pfam13276 634459002191 Integrase core domain; Region: rve; pfam00665 634459002192 Integrase core domain; Region: rve_3; pfam13683 634459002193 Transposase; Region: HTH_Tnp_1; pfam01527 634459002194 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 634459002195 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 634459002196 non-specific DNA binding site [nucleotide binding]; other site 634459002197 salt bridge; other site 634459002198 sequence-specific DNA binding site [nucleotide binding]; other site 634459002199 hypothetical protein; Validated; Region: PRK07078 634459002200 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 634459002201 active site 634459002202 metal binding site [ion binding]; metal-binding site 634459002203 interdomain interaction site; other site 634459002204 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 634459002205 Domain of unknown function (DUF927); Region: DUF927; pfam06048 634459002206 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 634459002207 active site 634459002208 oligomerization interface [polypeptide binding]; other site 634459002209 metal binding site [ion binding]; metal-binding site 634459002210 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 634459002211 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 634459002212 active site 634459002213 FMN binding site [chemical binding]; other site 634459002214 substrate binding site [chemical binding]; other site 634459002215 homotetramer interface [polypeptide binding]; other site 634459002216 catalytic residue [active] 634459002217 Helix-turn-helix domain; Region: HTH_20; pfam12840 634459002218 dimerization interface [polypeptide binding]; other site 634459002219 putative DNA binding site [nucleotide binding]; other site 634459002220 putative Zn2+ binding site [ion binding]; other site 634459002221 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 634459002222 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 634459002223 putative NAD(P) binding site [chemical binding]; other site 634459002224 putative substrate binding site [chemical binding]; other site 634459002225 catalytic Zn binding site [ion binding]; other site 634459002226 structural Zn binding site [ion binding]; other site 634459002227 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 634459002228 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 634459002229 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 634459002230 NAD binding site [chemical binding]; other site 634459002231 homodimer interface [polypeptide binding]; other site 634459002232 active site 634459002233 substrate binding site [chemical binding]; other site 634459002234 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 634459002235 diaminopimelate decarboxylase; Region: lysA; TIGR01048 634459002236 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 634459002237 active site 634459002238 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 634459002239 substrate binding site [chemical binding]; other site 634459002240 catalytic residues [active] 634459002241 dimer interface [polypeptide binding]; other site 634459002242 argininosuccinate lyase; Provisional; Region: PRK00855 634459002243 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 634459002244 active sites [active] 634459002245 tetramer interface [polypeptide binding]; other site 634459002246 N-formylglutamate amidohydrolase; Region: FGase; cl01522 634459002247 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 634459002248 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 634459002249 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 634459002250 shikimate binding site; other site 634459002251 NAD(P) binding site [chemical binding]; other site 634459002252 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 634459002253 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 634459002254 CoA-binding site [chemical binding]; other site 634459002255 ATP-binding [chemical binding]; other site 634459002256 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 634459002257 active site 634459002258 catalytic site [active] 634459002259 substrate binding site [chemical binding]; other site 634459002260 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634459002261 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 634459002262 putative ADP-binding pocket [chemical binding]; other site 634459002263 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 634459002264 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 634459002265 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 634459002266 substrate binding site [chemical binding]; other site 634459002267 hexamer interface [polypeptide binding]; other site 634459002268 metal binding site [ion binding]; metal-binding site 634459002269 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 634459002270 putative RNA binding site [nucleotide binding]; other site 634459002271 16S rRNA methyltransferase B; Provisional; Region: PRK10901 634459002272 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 634459002273 S-adenosylmethionine binding site [chemical binding]; other site 634459002274 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 634459002275 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 634459002276 active site 634459002277 substrate binding site [chemical binding]; other site 634459002278 cosubstrate binding site; other site 634459002279 catalytic site [active] 634459002280 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 634459002281 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 634459002282 dimerization interface [polypeptide binding]; other site 634459002283 putative ATP binding site [chemical binding]; other site 634459002284 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 634459002285 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 634459002286 polyphosphate kinase; Provisional; Region: PRK05443 634459002287 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 634459002288 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 634459002289 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 634459002290 putative domain interface [polypeptide binding]; other site 634459002291 putative active site [active] 634459002292 catalytic site [active] 634459002293 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 634459002294 putative domain interface [polypeptide binding]; other site 634459002295 putative active site [active] 634459002296 catalytic site [active] 634459002297 exopolyphosphatase; Region: exo_poly_only; TIGR03706 634459002298 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 634459002299 Cache domain; Region: Cache_1; pfam02743 634459002300 cyclase homology domain; Region: CHD; cd07302 634459002301 nucleotidyl binding site; other site 634459002302 metal binding site [ion binding]; metal-binding site 634459002303 dimer interface [polypeptide binding]; other site 634459002304 Permease; Region: Permease; pfam02405 634459002305 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 634459002306 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459002307 Q-loop/lid; other site 634459002308 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 634459002309 mce related protein; Region: MCE; pfam02470 634459002310 sugar binding site [chemical binding]; other site 634459002311 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 634459002312 Inward rectifier potassium channel; Region: IRK; pfam01007 634459002313 Fusaric acid resistance protein family; Region: FUSC; pfam04632 634459002314 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634459002315 Fusaric acid resistance protein family; Region: FUSC; pfam04632 634459002316 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634459002317 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 634459002318 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 634459002319 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 634459002320 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 634459002321 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 634459002322 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 634459002323 catalytic residues [active] 634459002324 central insert; other site 634459002325 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 634459002326 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 634459002327 heme exporter protein CcmC; Region: ccmC; TIGR01191 634459002328 YciI-like protein; Reviewed; Region: PRK12863 634459002329 EVE domain; Region: EVE; pfam01878 634459002330 Putative phosphatase (DUF442); Region: DUF442; cl17385 634459002331 EcsC protein family; Region: EcsC; pfam12787 634459002332 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 634459002333 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 634459002334 dimerization interface [polypeptide binding]; other site 634459002335 ligand binding site [chemical binding]; other site 634459002336 NADP binding site [chemical binding]; other site 634459002337 catalytic site [active] 634459002338 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 634459002339 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 634459002340 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 634459002341 Protein of unknown function; Region: DUF3971; pfam13116 634459002342 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 634459002343 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 634459002344 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 634459002345 metal binding triad; other site 634459002346 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 634459002347 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 634459002348 metal binding triad; other site 634459002349 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 634459002350 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 634459002351 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 634459002352 catalytic triad [active] 634459002353 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 634459002354 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 634459002355 putative substrate translocation pore; other site 634459002356 RmuC family; Region: RmuC; pfam02646 634459002357 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634459002358 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 634459002359 active site 634459002360 phosphorylation site [posttranslational modification] 634459002361 intermolecular recognition site; other site 634459002362 dimerization interface [polypeptide binding]; other site 634459002363 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 634459002364 DNA binding site [nucleotide binding] 634459002365 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634459002366 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 634459002367 dimerization interface [polypeptide binding]; other site 634459002368 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 634459002369 ATP binding site [chemical binding]; other site 634459002370 Mg2+ binding site [ion binding]; other site 634459002371 G-X-G motif; other site 634459002372 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 634459002373 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 634459002374 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634459002375 HlyD family secretion protein; Region: HlyD_3; pfam13437 634459002376 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 634459002377 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 634459002378 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 634459002379 23S rRNA interface [nucleotide binding]; other site 634459002380 L7/L12 interface [polypeptide binding]; other site 634459002381 putative thiostrepton binding site; other site 634459002382 L25 interface [polypeptide binding]; other site 634459002383 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 634459002384 mRNA/rRNA interface [nucleotide binding]; other site 634459002385 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 634459002386 23S rRNA interface [nucleotide binding]; other site 634459002387 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 634459002388 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 634459002389 L11 interface [polypeptide binding]; other site 634459002390 putative EF-Tu interaction site [polypeptide binding]; other site 634459002391 putative EF-G interaction site [polypeptide binding]; other site 634459002392 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 634459002393 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 634459002394 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 634459002395 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 634459002396 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 634459002397 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 634459002398 RPB1 interaction site [polypeptide binding]; other site 634459002399 RPB11 interaction site [polypeptide binding]; other site 634459002400 RPB10 interaction site [polypeptide binding]; other site 634459002401 RPB3 interaction site [polypeptide binding]; other site 634459002402 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 634459002403 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 634459002404 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 634459002405 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 634459002406 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 634459002407 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 634459002408 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 634459002409 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 634459002410 DNA binding site [nucleotide binding] 634459002411 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 634459002412 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 634459002413 S17 interaction site [polypeptide binding]; other site 634459002414 S8 interaction site; other site 634459002415 16S rRNA interaction site [nucleotide binding]; other site 634459002416 streptomycin interaction site [chemical binding]; other site 634459002417 23S rRNA interaction site [nucleotide binding]; other site 634459002418 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 634459002419 30S ribosomal protein S7; Validated; Region: PRK05302 634459002420 elongation factor Tu; Reviewed; Region: PRK00049 634459002421 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 634459002422 G1 box; other site 634459002423 GEF interaction site [polypeptide binding]; other site 634459002424 GTP/Mg2+ binding site [chemical binding]; other site 634459002425 Switch I region; other site 634459002426 G2 box; other site 634459002427 G3 box; other site 634459002428 Switch II region; other site 634459002429 G4 box; other site 634459002430 G5 box; other site 634459002431 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 634459002432 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 634459002433 Antibiotic Binding Site [chemical binding]; other site 634459002434 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 634459002435 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 634459002436 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 634459002437 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 634459002438 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 634459002439 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 634459002440 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 634459002441 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 634459002442 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 634459002443 putative translocon binding site; other site 634459002444 protein-rRNA interface [nucleotide binding]; other site 634459002445 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 634459002446 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 634459002447 G-X-X-G motif; other site 634459002448 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 634459002449 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 634459002450 23S rRNA interface [nucleotide binding]; other site 634459002451 5S rRNA interface [nucleotide binding]; other site 634459002452 putative antibiotic binding site [chemical binding]; other site 634459002453 L25 interface [polypeptide binding]; other site 634459002454 L27 interface [polypeptide binding]; other site 634459002455 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 634459002456 23S rRNA interface [nucleotide binding]; other site 634459002457 putative translocon interaction site; other site 634459002458 signal recognition particle (SRP54) interaction site; other site 634459002459 L23 interface [polypeptide binding]; other site 634459002460 trigger factor interaction site; other site 634459002461 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 634459002462 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 634459002463 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 634459002464 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 634459002465 RNA binding site [nucleotide binding]; other site 634459002466 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 634459002467 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 634459002468 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 634459002469 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 634459002470 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 634459002471 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 634459002472 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 634459002473 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 634459002474 5S rRNA interface [nucleotide binding]; other site 634459002475 23S rRNA interface [nucleotide binding]; other site 634459002476 L5 interface [polypeptide binding]; other site 634459002477 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 634459002478 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 634459002479 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 634459002480 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 634459002481 23S rRNA binding site [nucleotide binding]; other site 634459002482 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 634459002483 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 634459002484 SecY translocase; Region: SecY; pfam00344 634459002485 adenylate kinase; Reviewed; Region: adk; PRK00279 634459002486 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 634459002487 AMP-binding site [chemical binding]; other site 634459002488 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 634459002489 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 634459002490 30S ribosomal protein S13; Region: bact_S13; TIGR03631 634459002491 30S ribosomal protein S11; Validated; Region: PRK05309 634459002492 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 634459002493 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 634459002494 alphaNTD - beta interaction site [polypeptide binding]; other site 634459002495 alphaNTD homodimer interface [polypeptide binding]; other site 634459002496 alphaNTD - beta' interaction site [polypeptide binding]; other site 634459002497 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 634459002498 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 634459002499 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 634459002500 NMT1-like family; Region: NMT1_2; pfam13379 634459002501 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 634459002502 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 634459002503 dimer interface [polypeptide binding]; other site 634459002504 conserved gate region; other site 634459002505 putative PBP binding loops; other site 634459002506 ABC-ATPase subunit interface; other site 634459002507 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 634459002508 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 634459002509 Walker A/P-loop; other site 634459002510 ATP binding site [chemical binding]; other site 634459002511 Q-loop/lid; other site 634459002512 ABC transporter signature motif; other site 634459002513 Walker B; other site 634459002514 D-loop; other site 634459002515 H-loop/switch region; other site 634459002516 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 634459002517 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 634459002518 Protein export membrane protein; Region: SecD_SecF; cl14618 634459002519 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 634459002520 Protein export membrane protein; Region: SecD_SecF; cl14618 634459002521 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 634459002522 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634459002523 HlyD family secretion protein; Region: HlyD_3; pfam13437 634459002524 putative transporter; Provisional; Region: PRK10504 634459002525 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 634459002526 putative substrate translocation pore; other site 634459002527 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 634459002528 CsbD-like; Region: CsbD; pfam05532 634459002529 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 634459002530 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 634459002531 RNA/DNA hybrid binding site [nucleotide binding]; other site 634459002532 active site 634459002533 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 634459002534 DNA methylase; Region: N6_N4_Mtase; pfam01555 634459002535 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 634459002536 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 634459002537 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 634459002538 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 634459002539 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 634459002540 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 634459002541 Protein of unknown function DUF58; Region: DUF58; pfam01882 634459002542 MoxR-like ATPases [General function prediction only]; Region: COG0714 634459002543 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 634459002544 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 634459002545 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 634459002546 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 634459002547 active site 634459002548 NTP binding site [chemical binding]; other site 634459002549 metal binding triad [ion binding]; metal-binding site 634459002550 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 634459002551 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 634459002552 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634459002553 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459002554 Walker A/P-loop; other site 634459002555 ATP binding site [chemical binding]; other site 634459002556 Q-loop/lid; other site 634459002557 ABC transporter signature motif; other site 634459002558 Walker B; other site 634459002559 D-loop; other site 634459002560 H-loop/switch region; other site 634459002561 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 634459002562 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 634459002563 E3 interaction surface; other site 634459002564 lipoyl attachment site [posttranslational modification]; other site 634459002565 HlyD family secretion protein; Region: HlyD_3; pfam13437 634459002566 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 634459002567 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 634459002568 putative substrate translocation pore; other site 634459002569 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 634459002570 putative active site [active] 634459002571 Ap4A binding site [chemical binding]; other site 634459002572 nudix motif; other site 634459002573 putative metal binding site [ion binding]; other site 634459002574 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 634459002575 NodB motif; other site 634459002576 putative active site [active] 634459002577 putative catalytic site [active] 634459002578 Zn binding site [ion binding]; other site 634459002579 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 634459002580 C-terminal peptidase (prc); Region: prc; TIGR00225 634459002581 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 634459002582 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 634459002583 Catalytic dyad [active] 634459002584 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 634459002585 Peptidase family M23; Region: Peptidase_M23; pfam01551 634459002586 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 634459002587 phosphoglyceromutase; Provisional; Region: PRK05434 634459002588 threonine dehydratase; Provisional; Region: PRK07334 634459002589 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 634459002590 tetramer interface [polypeptide binding]; other site 634459002591 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459002592 catalytic residue [active] 634459002593 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 634459002594 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 634459002595 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 634459002596 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 634459002597 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 634459002598 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 634459002599 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 634459002600 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 634459002601 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 634459002602 ATP-grasp domain; Region: ATP-grasp_4; cl17255 634459002603 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 634459002604 IMP binding site; other site 634459002605 dimer interface [polypeptide binding]; other site 634459002606 partial ornithine binding site; other site 634459002607 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 634459002608 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 634459002609 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 634459002610 catalytic site [active] 634459002611 subunit interface [polypeptide binding]; other site 634459002612 Yqey-like protein; Region: YqeY; pfam09424 634459002613 DNA primase; Validated; Region: dnaG; PRK05667 634459002614 CHC2 zinc finger; Region: zf-CHC2; pfam01807 634459002615 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 634459002616 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 634459002617 active site 634459002618 metal binding site [ion binding]; metal-binding site 634459002619 interdomain interaction site; other site 634459002620 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 634459002621 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 634459002622 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 634459002623 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 634459002624 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634459002625 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 634459002626 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 634459002627 DNA binding residues [nucleotide binding] 634459002628 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 634459002629 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 634459002630 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 634459002631 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 634459002632 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 634459002633 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 634459002634 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 634459002635 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 634459002636 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 634459002637 S-adenosylmethionine binding site [chemical binding]; other site 634459002638 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 634459002639 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 634459002640 SurA N-terminal domain; Region: SurA_N; pfam09312 634459002641 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 634459002642 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 634459002643 OstA-like protein; Region: OstA; cl00844 634459002644 Organic solvent tolerance protein; Region: OstA_C; pfam04453 634459002645 Predicted permeases [General function prediction only]; Region: COG0795 634459002646 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 634459002647 Predicted permeases [General function prediction only]; Region: COG0795 634459002648 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 634459002649 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 634459002650 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 634459002651 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459002652 Walker A/P-loop; other site 634459002653 ATP binding site [chemical binding]; other site 634459002654 Q-loop/lid; other site 634459002655 ABC transporter signature motif; other site 634459002656 Walker B; other site 634459002657 D-loop; other site 634459002658 H-loop/switch region; other site 634459002659 Transcriptional regulators [Transcription]; Region: GntR; COG1802 634459002660 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 634459002661 DNA-binding site [nucleotide binding]; DNA binding site 634459002662 FCD domain; Region: FCD; pfam07729 634459002663 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 634459002664 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 634459002665 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 634459002666 Switch I; other site 634459002667 Switch II; other site 634459002668 septum formation inhibitor; Reviewed; Region: minC; PRK05177 634459002669 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 634459002670 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 634459002671 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 634459002672 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 634459002673 C-terminal domain interface [polypeptide binding]; other site 634459002674 GSH binding site (G-site) [chemical binding]; other site 634459002675 dimer interface [polypeptide binding]; other site 634459002676 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 634459002677 N-terminal domain interface [polypeptide binding]; other site 634459002678 dimer interface [polypeptide binding]; other site 634459002679 substrate binding pocket (H-site) [chemical binding]; other site 634459002680 Predicted flavoproteins [General function prediction only]; Region: COG2081 634459002681 Predicted methyltransferases [General function prediction only]; Region: COG0313 634459002682 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 634459002683 putative SAM binding site [chemical binding]; other site 634459002684 putative homodimer interface [polypeptide binding]; other site 634459002685 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 634459002686 putative ligand binding site [chemical binding]; other site 634459002687 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 634459002688 TPR motif; other site 634459002689 TPR repeat; Region: TPR_11; pfam13414 634459002690 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 634459002691 TPR motif; other site 634459002692 binding surface 634459002693 TPR repeat; Region: TPR_11; pfam13414 634459002694 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 634459002695 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 634459002696 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 634459002697 S-formylglutathione hydrolase; Region: PLN02442 634459002698 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 634459002699 putative active site [active] 634459002700 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 634459002701 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 634459002702 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 634459002703 Walker A/P-loop; other site 634459002704 ATP binding site [chemical binding]; other site 634459002705 Q-loop/lid; other site 634459002706 ABC transporter signature motif; other site 634459002707 Walker B; other site 634459002708 D-loop; other site 634459002709 H-loop/switch region; other site 634459002710 zinc-ribbon domain; Region: zinc_ribbon_4; pfam13717 634459002711 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 634459002712 active site 634459002713 phosphorylation site [posttranslational modification] 634459002714 intermolecular recognition site; other site 634459002715 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 634459002716 active site 634459002717 phosphorylation site [posttranslational modification] 634459002718 intermolecular recognition site; other site 634459002719 dimerization interface [polypeptide binding]; other site 634459002720 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 634459002721 dimer interface [polypeptide binding]; other site 634459002722 phosphorylation site [posttranslational modification] 634459002723 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 634459002724 ATP binding site [chemical binding]; other site 634459002725 Mg2+ binding site [ion binding]; other site 634459002726 G-X-G motif; other site 634459002727 Response regulator receiver domain; Region: Response_reg; pfam00072 634459002728 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 634459002729 active site 634459002730 phosphorylation site [posttranslational modification] 634459002731 intermolecular recognition site; other site 634459002732 dimerization interface [polypeptide binding]; other site 634459002733 PAS fold; Region: PAS_4; pfam08448 634459002734 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 634459002735 dimer interface [polypeptide binding]; other site 634459002736 phosphorylation site [posttranslational modification] 634459002737 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 634459002738 ATP binding site [chemical binding]; other site 634459002739 Mg2+ binding site [ion binding]; other site 634459002740 G-X-G motif; other site 634459002741 Response regulator receiver domain; Region: Response_reg; pfam00072 634459002742 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 634459002743 active site 634459002744 phosphorylation site [posttranslational modification] 634459002745 intermolecular recognition site; other site 634459002746 dimerization interface [polypeptide binding]; other site 634459002747 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 634459002748 active site 634459002749 HslU subunit interaction site [polypeptide binding]; other site 634459002750 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 634459002751 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 634459002752 Walker A motif; other site 634459002753 ATP binding site [chemical binding]; other site 634459002754 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 634459002755 Walker B motif; other site 634459002756 arginine finger; other site 634459002757 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 634459002758 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 634459002759 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 634459002760 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 634459002761 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634459002762 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634459002763 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 634459002764 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 634459002765 catalytic loop [active] 634459002766 iron binding site [ion binding]; other site 634459002767 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 634459002768 Cytochrome c; Region: Cytochrom_C; pfam00034 634459002769 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634459002770 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634459002771 Cytochrome c; Region: Cytochrom_C; pfam00034 634459002772 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 634459002773 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 634459002774 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 634459002775 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 634459002776 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 634459002777 23S rRNA binding site [nucleotide binding]; other site 634459002778 L21 binding site [polypeptide binding]; other site 634459002779 L13 binding site [polypeptide binding]; other site 634459002780 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 634459002781 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 634459002782 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 634459002783 dimer interface [polypeptide binding]; other site 634459002784 motif 1; other site 634459002785 active site 634459002786 motif 2; other site 634459002787 motif 3; other site 634459002788 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 634459002789 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 634459002790 putative tRNA-binding site [nucleotide binding]; other site 634459002791 B3/4 domain; Region: B3_4; pfam03483 634459002792 tRNA synthetase B5 domain; Region: B5; smart00874 634459002793 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 634459002794 motif 1; other site 634459002795 dimer interface [polypeptide binding]; other site 634459002796 motif 3; other site 634459002797 motif 2; other site 634459002798 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 634459002799 PBP superfamily domain; Region: PBP_like_2; cl17296 634459002800 The substrate-binding domain of an oligopeptide binding protein (OppA2) from the biosynthesis pathway of the beta-lactamase inhibitor clavulanic acid contains the type 2 periplasmic binding fold; Region: PBP2_clavulanate_OppA2; cd08506 634459002801 peptide binding site [polypeptide binding]; other site 634459002802 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 634459002803 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 634459002804 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 634459002805 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 634459002806 ligand binding site [chemical binding]; other site 634459002807 flexible hinge region; other site 634459002808 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 634459002809 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 634459002810 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 634459002811 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 634459002812 RNA binding surface [nucleotide binding]; other site 634459002813 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 634459002814 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 634459002815 G1 box; other site 634459002816 putative GEF interaction site [polypeptide binding]; other site 634459002817 GTP/Mg2+ binding site [chemical binding]; other site 634459002818 Switch I region; other site 634459002819 G2 box; other site 634459002820 G3 box; other site 634459002821 Switch II region; other site 634459002822 G4 box; other site 634459002823 G5 box; other site 634459002824 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 634459002825 hypothetical protein; Provisional; Region: PRK08999 634459002826 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 634459002827 tartrate dehydrogenase; Region: TTC; TIGR02089 634459002828 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 634459002829 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 634459002830 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 634459002831 active site 634459002832 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 634459002833 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 634459002834 S-adenosylmethionine binding site [chemical binding]; other site 634459002835 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 634459002836 Part of AAA domain; Region: AAA_19; pfam13245 634459002837 Family description; Region: UvrD_C_2; pfam13538 634459002838 DNA repair protein radc; Region: radc; TIGR00608 634459002839 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 634459002840 DNA repair protein radc; Region: radc; TIGR00608 634459002841 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 634459002842 MPN+ (JAMM) motif; other site 634459002843 Zinc-binding site [ion binding]; other site 634459002844 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 634459002845 ATP-grasp domain; Region: ATP-grasp; pfam02222 634459002846 AIR carboxylase; Region: AIRC; pfam00731 634459002847 Protein of unknown function (DUF465); Region: DUF465; cl01070 634459002848 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 634459002849 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 634459002850 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 634459002851 putative dimer interface [polypeptide binding]; other site 634459002852 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 634459002853 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 634459002854 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 634459002855 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 634459002856 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 634459002857 Protein export membrane protein; Region: SecD_SecF; pfam02355 634459002858 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 634459002859 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 634459002860 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 634459002861 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 634459002862 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 634459002863 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 634459002864 Class I ribonucleotide reductase; Region: RNR_I; cd01679 634459002865 active site 634459002866 dimer interface [polypeptide binding]; other site 634459002867 catalytic residues [active] 634459002868 effector binding site; other site 634459002869 R2 peptide binding site; other site 634459002870 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 634459002871 dimer interface [polypeptide binding]; other site 634459002872 putative radical transfer pathway; other site 634459002873 diiron center [ion binding]; other site 634459002874 tyrosyl radical; other site 634459002875 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 634459002876 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 634459002877 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 634459002878 substrate binding pocket [chemical binding]; other site 634459002879 chain length determination region; other site 634459002880 substrate-Mg2+ binding site; other site 634459002881 catalytic residues [active] 634459002882 aspartate-rich region 1; other site 634459002883 active site lid residues [active] 634459002884 aspartate-rich region 2; other site 634459002885 glutamate racemase; Provisional; Region: PRK00865 634459002886 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634459002887 active site 634459002888 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 634459002889 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 634459002890 dimer interface [polypeptide binding]; other site 634459002891 active site 634459002892 citrylCoA binding site [chemical binding]; other site 634459002893 NADH binding [chemical binding]; other site 634459002894 cationic pore residues; other site 634459002895 oxalacetate/citrate binding site [chemical binding]; other site 634459002896 coenzyme A binding site [chemical binding]; other site 634459002897 catalytic triad [active] 634459002898 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 634459002899 catalytic core [active] 634459002900 chorismate mutase; Provisional; Region: PRK09239 634459002901 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 634459002902 active site 634459002903 metal binding site [ion binding]; metal-binding site 634459002904 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 634459002905 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 634459002906 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 634459002907 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 634459002908 AAA domain; Region: AAA_23; pfam13476 634459002909 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 634459002910 Walker A/P-loop; other site 634459002911 ATP binding site [chemical binding]; other site 634459002912 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 634459002913 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 634459002914 ABC transporter signature motif; other site 634459002915 Walker B; other site 634459002916 D-loop; other site 634459002917 H-loop/switch region; other site 634459002918 Thioredoxin; Region: Thioredoxin_4; pfam13462 634459002919 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 634459002920 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 634459002921 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 634459002922 Transporter associated domain; Region: CorC_HlyC; smart01091 634459002923 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 634459002924 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 634459002925 PhoH-like protein; Region: PhoH; pfam02562 634459002926 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 634459002927 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 634459002928 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 634459002929 FeS/SAM binding site; other site 634459002930 TRAM domain; Region: TRAM; cl01282 634459002931 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 634459002932 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 634459002933 putative acyl-acceptor binding pocket; other site 634459002934 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 634459002935 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634459002936 Surface antigen; Region: Bac_surface_Ag; pfam01103 634459002937 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 634459002938 Family of unknown function (DUF490); Region: DUF490; pfam04357 634459002939 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 634459002940 putative catalytic site [active] 634459002941 putative phosphate binding site [ion binding]; other site 634459002942 active site 634459002943 metal binding site A [ion binding]; metal-binding site 634459002944 DNA binding site [nucleotide binding] 634459002945 putative AP binding site [nucleotide binding]; other site 634459002946 putative metal binding site B [ion binding]; other site 634459002947 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 634459002948 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 634459002949 active site 634459002950 dimer interface [polypeptide binding]; other site 634459002951 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 634459002952 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 634459002953 GIY-YIG motif/motif A; other site 634459002954 active site 634459002955 catalytic site [active] 634459002956 putative DNA binding site [nucleotide binding]; other site 634459002957 metal binding site [ion binding]; metal-binding site 634459002958 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 634459002959 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 634459002960 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 634459002961 MoaE interaction surface [polypeptide binding]; other site 634459002962 MoeB interaction surface [polypeptide binding]; other site 634459002963 thiocarboxylated glycine; other site 634459002964 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 634459002965 MoaE homodimer interface [polypeptide binding]; other site 634459002966 MoaD interaction [polypeptide binding]; other site 634459002967 active site residues [active] 634459002968 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 634459002969 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 634459002970 inhibitor-cofactor binding pocket; inhibition site 634459002971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459002972 catalytic residue [active] 634459002973 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 634459002974 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 634459002975 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634459002976 catalytic residue [active] 634459002977 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 634459002978 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 634459002979 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 634459002980 S-adenosylmethionine binding site [chemical binding]; other site 634459002981 AAA domain; Region: AAA_26; pfam13500 634459002982 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 634459002983 LexA repressor; Validated; Region: PRK00215 634459002984 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 634459002985 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 634459002986 Catalytic site [active] 634459002987 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 634459002988 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 634459002989 dimer interface [polypeptide binding]; other site 634459002990 putative functional site; other site 634459002991 putative MPT binding site; other site 634459002992 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 634459002993 Septum formation initiator; Region: DivIC; cl17659 634459002994 enolase; Provisional; Region: eno; PRK00077 634459002995 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 634459002996 dimer interface [polypeptide binding]; other site 634459002997 metal binding site [ion binding]; metal-binding site 634459002998 substrate binding pocket [chemical binding]; other site 634459002999 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 634459003000 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 634459003001 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 634459003002 thiS-thiF/thiG interaction site; other site 634459003003 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 634459003004 ThiS interaction site; other site 634459003005 putative active site [active] 634459003006 tetramer interface [polypeptide binding]; other site 634459003007 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 634459003008 thiamine phosphate binding site [chemical binding]; other site 634459003009 active site 634459003010 pyrophosphate binding site [ion binding]; other site 634459003011 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 634459003012 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 634459003013 generic binding surface II; other site 634459003014 ssDNA binding site; other site 634459003015 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 634459003016 ATP binding site [chemical binding]; other site 634459003017 putative Mg++ binding site [ion binding]; other site 634459003018 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 634459003019 nucleotide binding region [chemical binding]; other site 634459003020 ATP-binding site [chemical binding]; other site 634459003021 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 634459003022 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 634459003023 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 634459003024 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 634459003025 ATP binding site [chemical binding]; other site 634459003026 putative Mg++ binding site [ion binding]; other site 634459003027 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 634459003028 nucleotide binding region [chemical binding]; other site 634459003029 ATP-binding site [chemical binding]; other site 634459003030 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 634459003031 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 634459003032 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 634459003033 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 634459003034 tyrosine decarboxylase; Region: PLN02880 634459003035 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 634459003036 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459003037 catalytic residue [active] 634459003038 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 634459003039 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 634459003040 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 634459003041 metal ion-dependent adhesion site (MIDAS); other site 634459003042 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 634459003043 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 634459003044 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 634459003045 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 634459003046 HSP70 interaction site [polypeptide binding]; other site 634459003047 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 634459003048 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 634459003049 lipoate-protein ligase B; Provisional; Region: PRK14341 634459003050 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 634459003051 active site 634459003052 tetramer interface; other site 634459003053 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 634459003054 active site 634459003055 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 634459003056 substrate binding site [chemical binding]; other site 634459003057 metal binding site [ion binding]; metal-binding site 634459003058 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 634459003059 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 634459003060 FeS/SAM binding site; other site 634459003061 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 634459003062 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 634459003063 S-adenosylmethionine binding site [chemical binding]; other site 634459003064 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 634459003065 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634459003066 active site 634459003067 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 634459003068 GSH binding site [chemical binding]; other site 634459003069 catalytic residues [active] 634459003070 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 634459003071 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 634459003072 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 634459003073 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 634459003074 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 634459003075 S-adenosylmethionine binding site [chemical binding]; other site 634459003076 aspartate kinase; Reviewed; Region: PRK06635 634459003077 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 634459003078 putative nucleotide binding site [chemical binding]; other site 634459003079 putative catalytic residues [active] 634459003080 putative Mg ion binding site [ion binding]; other site 634459003081 putative aspartate binding site [chemical binding]; other site 634459003082 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 634459003083 putative allosteric regulatory site; other site 634459003084 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 634459003085 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 634459003086 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 634459003087 FMN binding site [chemical binding]; other site 634459003088 substrate binding site [chemical binding]; other site 634459003089 putative catalytic residue [active] 634459003090 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 634459003091 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 634459003092 non-specific DNA binding site [nucleotide binding]; other site 634459003093 salt bridge; other site 634459003094 sequence-specific DNA binding site [nucleotide binding]; other site 634459003095 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 634459003096 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 634459003097 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 634459003098 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 634459003099 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 634459003100 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 634459003101 dimer interface [polypeptide binding]; other site 634459003102 motif 1; other site 634459003103 active site 634459003104 motif 2; other site 634459003105 motif 3; other site 634459003106 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 634459003107 anticodon binding site; other site 634459003108 peptide chain release factor 1; Validated; Region: prfA; PRK00591 634459003109 PCRF domain; Region: PCRF; pfam03462 634459003110 RF-1 domain; Region: RF-1; pfam00472 634459003111 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 634459003112 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 634459003113 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 634459003114 mce related protein; Region: MCE; pfam02470 634459003115 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 634459003116 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 634459003117 ATP-grasp domain; Region: ATP-grasp_4; cl17255 634459003118 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 634459003119 Transglycosylase SLT domain; Region: SLT_2; pfam13406 634459003120 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 634459003121 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634459003122 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 634459003123 Sporulation related domain; Region: SPOR; cl10051 634459003124 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 634459003125 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 634459003126 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 634459003127 thymidylate kinase; Validated; Region: tmk; PRK00698 634459003128 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 634459003129 TMP-binding site; other site 634459003130 ATP-binding site [chemical binding]; other site 634459003131 DNA polymerase III subunit delta'; Validated; Region: PRK07471 634459003132 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 634459003133 Walker A motif; other site 634459003134 ATP binding site [chemical binding]; other site 634459003135 Walker B motif; other site 634459003136 arginine finger; other site 634459003137 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 634459003138 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 634459003139 active site 634459003140 HIGH motif; other site 634459003141 KMSKS motif; other site 634459003142 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 634459003143 tRNA binding surface [nucleotide binding]; other site 634459003144 anticodon binding site; other site 634459003145 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 634459003146 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 634459003147 active site 634459003148 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 634459003149 putative hydrolase; Provisional; Region: PRK02113 634459003150 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 634459003151 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 634459003152 Ligand Binding Site [chemical binding]; other site 634459003153 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 634459003154 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 634459003155 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 634459003156 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 634459003157 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 634459003158 NAD binding site [chemical binding]; other site 634459003159 homotetramer interface [polypeptide binding]; other site 634459003160 homodimer interface [polypeptide binding]; other site 634459003161 substrate binding site [chemical binding]; other site 634459003162 active site 634459003163 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 634459003164 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 634459003165 Tetramer interface [polypeptide binding]; other site 634459003166 active site 634459003167 FMN-binding site [chemical binding]; other site 634459003168 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 634459003169 malate:quinone oxidoreductase; Validated; Region: PRK05257 634459003170 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 634459003171 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 634459003172 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 634459003173 Ligand Binding Site [chemical binding]; other site 634459003174 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 634459003175 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 634459003176 biotin synthase; Region: bioB; TIGR00433 634459003177 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 634459003178 FeS/SAM binding site; other site 634459003179 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 634459003180 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 634459003181 Domain of unknown function (DUF333); Region: DUF333; pfam03891 634459003182 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 634459003183 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 634459003184 Active Sites [active] 634459003185 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 634459003186 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 634459003187 Active Sites [active] 634459003188 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 634459003189 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 634459003190 G1 box; other site 634459003191 GTP/Mg2+ binding site [chemical binding]; other site 634459003192 G2 box; other site 634459003193 Switch I region; other site 634459003194 G3 box; other site 634459003195 Switch II region; other site 634459003196 G4 box; other site 634459003197 G5 box; other site 634459003198 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 634459003199 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 634459003200 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 634459003201 ligand-binding site [chemical binding]; other site 634459003202 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 634459003203 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 634459003204 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 634459003205 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 634459003206 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 634459003207 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 634459003208 putative acyl-acceptor binding pocket; other site 634459003209 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 634459003210 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 634459003211 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 634459003212 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 634459003213 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 634459003214 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 634459003215 putative acyl-acceptor binding pocket; other site 634459003216 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 634459003217 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 634459003218 active site 634459003219 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 634459003220 putative amphipathic alpha helix; other site 634459003221 YceG-like family; Region: YceG; pfam02618 634459003222 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 634459003223 dimerization interface [polypeptide binding]; other site 634459003224 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 634459003225 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 634459003226 dimer interface [polypeptide binding]; other site 634459003227 active site 634459003228 acyl carrier protein; Provisional; Region: acpP; PRK00982 634459003229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634459003230 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 634459003231 NAD(P) binding site [chemical binding]; other site 634459003232 active site 634459003233 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 634459003234 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 634459003235 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 634459003236 putative active site [active] 634459003237 Methyltransferase domain; Region: Methyltransf_31; pfam13847 634459003238 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 634459003239 S-adenosylmethionine binding site [chemical binding]; other site 634459003240 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 634459003241 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 634459003242 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634459003243 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 634459003244 catalytic residues [active] 634459003245 catalytic nucleophile [active] 634459003246 Presynaptic Site I dimer interface [polypeptide binding]; other site 634459003247 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634459003248 Synaptic Flat tetramer interface [polypeptide binding]; other site 634459003249 Synaptic Site I dimer interface [polypeptide binding]; other site 634459003250 DNA binding site [nucleotide binding] 634459003251 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 634459003252 DNA-binding interface [nucleotide binding]; DNA binding site 634459003253 Winged helix-turn helix; Region: HTH_29; pfam13551 634459003254 Helix-turn-helix domain; Region: HTH_28; pfam13518 634459003255 Homeodomain-like domain; Region: HTH_32; pfam13565 634459003256 Integrase core domain; Region: rve; pfam00665 634459003257 Integrase core domain; Region: rve_3; cl15866 634459003258 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 634459003259 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 634459003260 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 634459003261 DNA-binding site [nucleotide binding]; DNA binding site 634459003262 RNA-binding motif; other site 634459003263 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 634459003264 DNA-binding site [nucleotide binding]; DNA binding site 634459003265 RNA-binding motif; other site 634459003266 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 634459003267 SmpB-tmRNA interface; other site 634459003268 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 634459003269 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 634459003270 dimer interface [polypeptide binding]; other site 634459003271 active site 634459003272 catalytic residue [active] 634459003273 prephenate dehydratase; Provisional; Region: PRK11899 634459003274 Prephenate dehydratase; Region: PDT; pfam00800 634459003275 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 634459003276 putative L-Phe binding site [chemical binding]; other site 634459003277 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 634459003278 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 634459003279 Ligand binding site; other site 634459003280 oligomer interface; other site 634459003281 Cytochrome c; Region: Cytochrom_C; cl11414 634459003282 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 634459003283 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 634459003284 active site 634459003285 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 634459003286 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 634459003287 ligand binding site [chemical binding]; other site 634459003288 NAD binding site [chemical binding]; other site 634459003289 tetramer interface [polypeptide binding]; other site 634459003290 catalytic site [active] 634459003291 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 634459003292 L-serine binding site [chemical binding]; other site 634459003293 ACT domain interface; other site 634459003294 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 634459003295 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 634459003296 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 634459003297 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 634459003298 cystathionine beta-lyase; Provisional; Region: PRK05967 634459003299 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 634459003300 homodimer interface [polypeptide binding]; other site 634459003301 substrate-cofactor binding pocket; other site 634459003302 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459003303 catalytic residue [active] 634459003304 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 634459003305 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 634459003306 active site residue [active] 634459003307 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 634459003308 active site residue [active] 634459003309 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 634459003310 Domain of unknown function DUF20; Region: UPF0118; pfam01594 634459003311 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 634459003312 putative catalytic site [active] 634459003313 putative metal binding site [ion binding]; other site 634459003314 putative phosphate binding site [ion binding]; other site 634459003315 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 634459003316 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 634459003317 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 634459003318 putative active site [active] 634459003319 catalytic site [active] 634459003320 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 634459003321 putative active site [active] 634459003322 catalytic site [active] 634459003323 hypothetical protein; Reviewed; Region: PRK12497 634459003324 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 634459003325 putative GSH binding site [chemical binding]; other site 634459003326 catalytic residues [active] 634459003327 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 634459003328 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 634459003329 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 634459003330 dimerization interface [polypeptide binding]; other site 634459003331 ATP binding site [chemical binding]; other site 634459003332 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 634459003333 dimerization interface [polypeptide binding]; other site 634459003334 ATP binding site [chemical binding]; other site 634459003335 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 634459003336 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 634459003337 putative active site [active] 634459003338 catalytic triad [active] 634459003339 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 634459003340 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 634459003341 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 634459003342 ATP binding site [chemical binding]; other site 634459003343 active site 634459003344 substrate binding site [chemical binding]; other site 634459003345 adenylosuccinate lyase; Provisional; Region: PRK07492 634459003346 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 634459003347 tetramer interface [polypeptide binding]; other site 634459003348 active site 634459003349 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 634459003350 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 634459003351 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 634459003352 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 634459003353 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634459003354 catalytic residue [active] 634459003355 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 634459003356 tetramer interfaces [polypeptide binding]; other site 634459003357 binuclear metal-binding site [ion binding]; other site 634459003358 Competence-damaged protein; Region: CinA; pfam02464 634459003359 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 634459003360 putative coenzyme Q binding site [chemical binding]; other site 634459003361 lipoyl synthase; Provisional; Region: PRK05481 634459003362 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 634459003363 FeS/SAM binding site; other site 634459003364 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 634459003365 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634459003366 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 634459003367 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 634459003368 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 634459003369 E3 interaction surface; other site 634459003370 lipoyl attachment site [posttranslational modification]; other site 634459003371 e3 binding domain; Region: E3_binding; pfam02817 634459003372 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 634459003373 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 634459003374 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 634459003375 E3 interaction surface; other site 634459003376 lipoyl attachment site [posttranslational modification]; other site 634459003377 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 634459003378 alpha subunit interface [polypeptide binding]; other site 634459003379 TPP binding site [chemical binding]; other site 634459003380 heterodimer interface [polypeptide binding]; other site 634459003381 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634459003382 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 634459003383 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 634459003384 tetramer interface [polypeptide binding]; other site 634459003385 TPP-binding site [chemical binding]; other site 634459003386 heterodimer interface [polypeptide binding]; other site 634459003387 phosphorylation loop region [posttranslational modification] 634459003388 molybdenum cofactor biosynthesis protein MoaC; Provisional; Region: moaC; PRK09364 634459003389 trimer interface [polypeptide binding]; other site 634459003390 dimer interface [polypeptide binding]; other site 634459003391 putative active site [active] 634459003392 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 634459003393 active site 634459003394 ribulose/triose binding site [chemical binding]; other site 634459003395 phosphate binding site [ion binding]; other site 634459003396 substrate (anthranilate) binding pocket [chemical binding]; other site 634459003397 product (indole) binding pocket [chemical binding]; other site 634459003398 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 634459003399 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 634459003400 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 634459003401 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 634459003402 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 634459003403 glutamine binding [chemical binding]; other site 634459003404 catalytic triad [active] 634459003405 anthranilate synthase component I; Provisional; Region: PRK13573 634459003406 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 634459003407 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 634459003408 SurA N-terminal domain; Region: SurA_N_3; cl07813 634459003409 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 634459003410 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 634459003411 triosephosphate isomerase; Provisional; Region: PRK14565 634459003412 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 634459003413 substrate binding site [chemical binding]; other site 634459003414 dimer interface [polypeptide binding]; other site 634459003415 catalytic triad [active] 634459003416 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 634459003417 CTP synthetase; Validated; Region: pyrG; PRK05380 634459003418 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 634459003419 Catalytic site [active] 634459003420 active site 634459003421 UTP binding site [chemical binding]; other site 634459003422 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 634459003423 active site 634459003424 putative oxyanion hole; other site 634459003425 catalytic triad [active] 634459003426 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 634459003427 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 634459003428 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 634459003429 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 634459003430 ATP binding site [chemical binding]; other site 634459003431 Mg2+ binding site [ion binding]; other site 634459003432 G-X-G motif; other site 634459003433 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 634459003434 anchoring element; other site 634459003435 dimer interface [polypeptide binding]; other site 634459003436 ATP binding site [chemical binding]; other site 634459003437 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 634459003438 active site 634459003439 putative metal-binding site [ion binding]; other site 634459003440 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 634459003441 recombination protein F; Reviewed; Region: recF; PRK00064 634459003442 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459003443 Walker A/P-loop; other site 634459003444 ATP binding site [chemical binding]; other site 634459003445 Q-loop/lid; other site 634459003446 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459003447 ABC transporter signature motif; other site 634459003448 Walker B; other site 634459003449 D-loop; other site 634459003450 H-loop/switch region; other site 634459003451 DNA polymerase III subunit beta; Validated; Region: PRK05643 634459003452 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 634459003453 putative DNA binding surface [nucleotide binding]; other site 634459003454 dimer interface [polypeptide binding]; other site 634459003455 beta-clamp/clamp loader binding surface; other site 634459003456 beta-clamp/translesion DNA polymerase binding surface; other site 634459003457 DnaA N-terminal domain; Region: DnaA_N; pfam11638 634459003458 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 634459003459 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 634459003460 Walker A motif; other site 634459003461 ATP binding site [chemical binding]; other site 634459003462 Walker B motif; other site 634459003463 arginine finger; other site 634459003464 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 634459003465 DnaA box-binding interface [nucleotide binding]; other site 634459003466 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 634459003467 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 634459003468 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 634459003469 DNA binding site [nucleotide binding] 634459003470 catalytic residue [active] 634459003471 H2TH interface [polypeptide binding]; other site 634459003472 putative catalytic residues [active] 634459003473 turnover-facilitating residue; other site 634459003474 intercalation triad [nucleotide binding]; other site 634459003475 8OG recognition residue [nucleotide binding]; other site 634459003476 putative reading head residues; other site 634459003477 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 634459003478 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 634459003479 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 634459003480 S-adenosylmethionine binding site [chemical binding]; other site 634459003481 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 634459003482 Flavoprotein; Region: Flavoprotein; pfam02441 634459003483 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 634459003484 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 634459003485 trimer interface [polypeptide binding]; other site 634459003486 active site 634459003487 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 634459003488 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 634459003489 dimer interface [polypeptide binding]; other site 634459003490 conserved gate region; other site 634459003491 putative PBP binding loops; other site 634459003492 ABC-ATPase subunit interface; other site 634459003493 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 634459003494 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 634459003495 Walker A/P-loop; other site 634459003496 ATP binding site [chemical binding]; other site 634459003497 Q-loop/lid; other site 634459003498 ABC transporter signature motif; other site 634459003499 Walker B; other site 634459003500 D-loop; other site 634459003501 H-loop/switch region; other site 634459003502 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 634459003503 methionine sulfoxide reductase A; Provisional; Region: PRK14054 634459003504 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 634459003505 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 634459003506 HIGH motif; other site 634459003507 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 634459003508 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 634459003509 active site 634459003510 KMSKS motif; other site 634459003511 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 634459003512 tRNA binding surface [nucleotide binding]; other site 634459003513 anticodon binding site; other site 634459003514 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 634459003515 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 634459003516 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 634459003517 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 634459003518 Hint domain; Region: Hint_2; pfam13403 634459003519 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 634459003520 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634459003521 NAD(P) binding site [chemical binding]; other site 634459003522 active site 634459003523 thiamine monophosphate kinase; Provisional; Region: PRK05731 634459003524 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 634459003525 ATP binding site [chemical binding]; other site 634459003526 dimerization interface [polypeptide binding]; other site 634459003527 transcription antitermination factor NusB; Region: nusB; TIGR01951 634459003528 putative RNA binding site [nucleotide binding]; other site 634459003529 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 634459003530 ATP cone domain; Region: ATP-cone; pfam03477 634459003531 Protein of unknown function (DUF461); Region: DUF461; pfam04314 634459003532 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 634459003533 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 634459003534 N- and C-terminal domain interface [polypeptide binding]; other site 634459003535 active site 634459003536 MgATP binding site [chemical binding]; other site 634459003537 catalytic site [active] 634459003538 metal binding site [ion binding]; metal-binding site 634459003539 glycerol binding site [chemical binding]; other site 634459003540 homotetramer interface [polypeptide binding]; other site 634459003541 homodimer interface [polypeptide binding]; other site 634459003542 FBP binding site [chemical binding]; other site 634459003543 protein IIAGlc interface [polypeptide binding]; other site 634459003544 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 634459003545 amphipathic channel; other site 634459003546 Asn-Pro-Ala signature motifs; other site 634459003547 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 634459003548 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 634459003549 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 634459003550 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 634459003551 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 634459003552 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 634459003553 ATP binding site [chemical binding]; other site 634459003554 putative Mg++ binding site [ion binding]; other site 634459003555 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 634459003556 nucleotide binding region [chemical binding]; other site 634459003557 ATP-binding site [chemical binding]; other site 634459003558 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 634459003559 HRDC domain; Region: HRDC; pfam00570 634459003560 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 634459003561 ligand binding site [chemical binding]; other site 634459003562 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 634459003563 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459003564 Walker A/P-loop; other site 634459003565 ATP binding site [chemical binding]; other site 634459003566 Q-loop/lid; other site 634459003567 ABC transporter signature motif; other site 634459003568 Walker B; other site 634459003569 D-loop; other site 634459003570 H-loop/switch region; other site 634459003571 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 634459003572 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459003573 Walker A/P-loop; other site 634459003574 ATP binding site [chemical binding]; other site 634459003575 Q-loop/lid; other site 634459003576 ABC transporter signature motif; other site 634459003577 Walker B; other site 634459003578 D-loop; other site 634459003579 H-loop/switch region; other site 634459003580 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 634459003581 Histidine kinase; Region: HisKA_2; pfam07568 634459003582 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 634459003583 ATP binding site [chemical binding]; other site 634459003584 Mg2+ binding site [ion binding]; other site 634459003585 G-X-G motif; other site 634459003586 RNA polymerase sigma factor; Provisional; Region: PRK12547 634459003587 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634459003588 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 634459003589 DNA binding residues [nucleotide binding] 634459003590 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634459003591 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 634459003592 DNA binding residues [nucleotide binding] 634459003593 two-component response regulator; Provisional; Region: PRK09191 634459003594 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 634459003595 active site 634459003596 phosphorylation site [posttranslational modification] 634459003597 intermolecular recognition site; other site 634459003598 dimerization interface [polypeptide binding]; other site 634459003599 ABC transporter ATPase component; Reviewed; Region: PRK11147 634459003600 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634459003601 ABC transporter; Region: ABC_tran_2; pfam12848 634459003602 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634459003603 trehalase; Provisional; Region: treF; PRK13270 634459003604 Trehalase; Region: Trehalase; cl17346 634459003605 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 634459003606 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 634459003607 substrate binding site [chemical binding]; other site 634459003608 catalytic Zn binding site [ion binding]; other site 634459003609 NAD binding site [chemical binding]; other site 634459003610 structural Zn binding site [ion binding]; other site 634459003611 dimer interface [polypeptide binding]; other site 634459003612 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 634459003613 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 634459003614 PhnA protein; Region: PhnA; pfam03831 634459003615 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 634459003616 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 634459003617 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 634459003618 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 634459003619 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 634459003620 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 634459003621 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 634459003622 amidohydrolase; Provisional; Region: PRK12393 634459003623 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 634459003624 active site 634459003625 putative substrate binding pocket [chemical binding]; other site 634459003626 NMT1/THI5 like; Region: NMT1; pfam09084 634459003627 Predicted small integral membrane protein (DUF2165); Region: DUF2165; pfam09933 634459003628 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 634459003629 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 634459003630 Walker A/P-loop; other site 634459003631 ATP binding site [chemical binding]; other site 634459003632 Q-loop/lid; other site 634459003633 ABC transporter signature motif; other site 634459003634 Walker B; other site 634459003635 D-loop; other site 634459003636 H-loop/switch region; other site 634459003637 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 634459003638 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 634459003639 dimer interface [polypeptide binding]; other site 634459003640 ABC-ATPase subunit interface; other site 634459003641 putative PBP binding loops; other site 634459003642 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 634459003643 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 634459003644 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 634459003645 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 634459003646 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 634459003647 active site 634459003648 putative substrate binding pocket [chemical binding]; other site 634459003649 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 634459003650 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 634459003651 allantoate amidohydrolase; Reviewed; Region: PRK09290 634459003652 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 634459003653 active site 634459003654 metal binding site [ion binding]; metal-binding site 634459003655 dimer interface [polypeptide binding]; other site 634459003656 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 634459003657 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634459003658 catalytic residue [active] 634459003659 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 634459003660 SnoaL-like domain; Region: SnoaL_3; pfam13474 634459003661 Protein of unknown function (DUF4089); Region: DUF4089; pfam13318 634459003662 amidase; Provisional; Region: PRK09201 634459003663 Amidase; Region: Amidase; pfam01425 634459003664 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 634459003665 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 634459003666 XdhC Rossmann domain; Region: XdhC_C; pfam13478 634459003667 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 634459003668 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 634459003669 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634459003670 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 634459003671 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 634459003672 catalytic loop [active] 634459003673 iron binding site [ion binding]; other site 634459003674 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 634459003675 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 634459003676 xanthine permease; Region: pbuX; TIGR03173 634459003677 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 634459003678 active site 634459003679 homotetramer interface [polypeptide binding]; other site 634459003680 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 634459003681 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 634459003682 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 634459003683 active site 634459003684 catalytic site [active] 634459003685 tetramer interface [polypeptide binding]; other site 634459003686 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 634459003687 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 634459003688 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459003689 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634459003690 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 634459003691 dimerization interface [polypeptide binding]; other site 634459003692 guanine deaminase; Provisional; Region: PRK09228 634459003693 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 634459003694 active site 634459003695 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 634459003696 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 634459003697 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634459003698 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 634459003699 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634459003700 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 634459003701 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 634459003702 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634459003703 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 634459003704 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 634459003705 HlyD family secretion protein; Region: HlyD_3; pfam13437 634459003706 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 634459003707 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 634459003708 Walker A/P-loop; other site 634459003709 ATP binding site [chemical binding]; other site 634459003710 Q-loop/lid; other site 634459003711 ABC transporter signature motif; other site 634459003712 Walker B; other site 634459003713 D-loop; other site 634459003714 H-loop/switch region; other site 634459003715 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459003716 Walker A/P-loop; other site 634459003717 ATP binding site [chemical binding]; other site 634459003718 Q-loop/lid; other site 634459003719 ABC transporter signature motif; other site 634459003720 Walker B; other site 634459003721 D-loop; other site 634459003722 H-loop/switch region; other site 634459003723 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 634459003724 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 634459003725 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 634459003726 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 634459003727 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 634459003728 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634459003729 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459003730 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 634459003731 putative dimerization interface [polypeptide binding]; other site 634459003732 Predicted membrane protein [Function unknown]; Region: COG2855 634459003733 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 634459003734 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 634459003735 Active site cavity [active] 634459003736 catalytic acid [active] 634459003737 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634459003738 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634459003739 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634459003740 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634459003741 WHG domain; Region: WHG; pfam13305 634459003742 Secretory lipase; Region: LIP; pfam03583 634459003743 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 634459003744 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634459003745 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 634459003746 NAD(P) binding site [chemical binding]; other site 634459003747 catalytic residues [active] 634459003748 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 634459003749 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 634459003750 FMN binding site [chemical binding]; other site 634459003751 active site 634459003752 substrate binding site [chemical binding]; other site 634459003753 catalytic residue [active] 634459003754 Predicted transcriptional regulators [Transcription]; Region: COG1733 634459003755 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 634459003756 hydroperoxidase II; Provisional; Region: katE; PRK11249 634459003757 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 634459003758 heme binding pocket [chemical binding]; other site 634459003759 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 634459003760 domain interactions; other site 634459003761 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 634459003762 hypothetical protein; Provisional; Region: PRK09256 634459003763 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 634459003764 Putative glucoamylase; Region: Glycoamylase; pfam10091 634459003765 Putative glucoamylase; Region: Glycoamylase; pfam10091 634459003766 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 634459003767 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 634459003768 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 634459003769 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 634459003770 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 634459003771 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 634459003772 active site 634459003773 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 634459003774 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634459003775 Coenzyme A binding pocket [chemical binding]; other site 634459003776 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 634459003777 dimer interface [polypeptide binding]; other site 634459003778 substrate binding site [chemical binding]; other site 634459003779 ATP binding site [chemical binding]; other site 634459003780 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 634459003781 ABC transporter signature motif; other site 634459003782 Walker B; other site 634459003783 D-loop; other site 634459003784 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 634459003785 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 634459003786 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 634459003787 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 634459003788 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 634459003789 Protein of unknown function DUF72; Region: DUF72; pfam01904 634459003790 Uncharacterized conserved protein [Function unknown]; Region: COG2135 634459003791 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 634459003792 putative chaperone; Provisional; Region: PRK11678 634459003793 nucleotide binding site [chemical binding]; other site 634459003794 putative NEF/HSP70 interaction site [polypeptide binding]; other site 634459003795 SBD interface [polypeptide binding]; other site 634459003796 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 634459003797 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 634459003798 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 634459003799 HlyD family secretion protein; Region: HlyD_3; pfam13437 634459003800 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 634459003801 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634459003802 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634459003803 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 634459003804 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 634459003805 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 634459003806 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 634459003807 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 634459003808 putative substrate translocation pore; other site 634459003809 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 634459003810 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 634459003811 active site 634459003812 hypothetical protein; Provisional; Region: PRK09945 634459003813 Hint domain; Region: Hint_2; pfam13403 634459003814 SnoaL-like domain; Region: SnoaL_2; pfam12680 634459003815 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 634459003816 Helix-turn-helix domain; Region: HTH_18; pfam12833 634459003817 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634459003818 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 634459003819 putative deacylase active site [active] 634459003820 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 634459003821 putative substrate translocation pore; other site 634459003822 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 634459003823 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 634459003824 metal binding site 2 [ion binding]; metal-binding site 634459003825 putative DNA binding helix; other site 634459003826 metal binding site 1 [ion binding]; metal-binding site 634459003827 dimer interface [polypeptide binding]; other site 634459003828 structural Zn2+ binding site [ion binding]; other site 634459003829 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 634459003830 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634459003831 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634459003832 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 634459003833 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 634459003834 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 634459003835 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634459003836 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459003837 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459003838 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 634459003839 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 634459003840 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 634459003841 ligand-binding site [chemical binding]; other site 634459003842 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459003843 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459003844 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 634459003845 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 634459003846 FecR protein; Region: FecR; pfam04773 634459003847 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634459003848 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 634459003849 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 634459003850 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 634459003851 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 634459003852 N-terminal plug; other site 634459003853 ligand-binding site [chemical binding]; other site 634459003854 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 634459003855 FecR protein; Region: FecR; pfam04773 634459003856 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459003857 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459003858 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 634459003859 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 634459003860 DNA binding residues [nucleotide binding] 634459003861 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 634459003862 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 634459003863 substrate binding pocket [chemical binding]; other site 634459003864 membrane-bound complex binding site; other site 634459003865 hinge residues; other site 634459003866 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 634459003867 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 634459003868 Walker A/P-loop; other site 634459003869 ATP binding site [chemical binding]; other site 634459003870 Q-loop/lid; other site 634459003871 ABC transporter signature motif; other site 634459003872 Walker B; other site 634459003873 D-loop; other site 634459003874 H-loop/switch region; other site 634459003875 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 634459003876 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 634459003877 dimer interface [polypeptide binding]; other site 634459003878 conserved gate region; other site 634459003879 putative PBP binding loops; other site 634459003880 ABC-ATPase subunit interface; other site 634459003881 Secretory lipase; Region: LIP; pfam03583 634459003882 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 634459003883 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 634459003884 active site 634459003885 iron coordination sites [ion binding]; other site 634459003886 substrate binding pocket [chemical binding]; other site 634459003887 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634459003888 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 634459003889 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634459003890 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459003891 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459003892 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634459003893 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 634459003894 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 634459003895 D-galactonate transporter; Region: 2A0114; TIGR00893 634459003896 putative substrate translocation pore; other site 634459003897 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 634459003898 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459003899 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 634459003900 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459003901 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 634459003902 putative substrate translocation pore; other site 634459003903 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 634459003904 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459003905 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_1; cd08447 634459003906 putative dimerization interface [polypeptide binding]; other site 634459003907 putative substrate binding pocket [chemical binding]; other site 634459003908 dihydroxy-acid dehydratase; Provisional; Region: PRK13016 634459003909 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 634459003910 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 634459003911 Winged helix-turn helix; Region: HTH_29; pfam13551 634459003912 Integrase core domain; Region: rve; pfam00665 634459003913 Integrase core domain; Region: rve_3; pfam13683 634459003914 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 634459003915 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 634459003916 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634459003917 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459003918 LysR substrate binding domain; Region: LysR_substrate; pfam03466 634459003919 dimerization interface [polypeptide binding]; other site 634459003920 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 634459003921 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 634459003922 putative active site [active] 634459003923 metal binding site [ion binding]; metal-binding site 634459003924 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 634459003925 metabolite-proton symporter; Region: 2A0106; TIGR00883 634459003926 putative substrate translocation pore; other site 634459003927 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 634459003928 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 634459003929 tetrameric interface [polypeptide binding]; other site 634459003930 NAD binding site [chemical binding]; other site 634459003931 catalytic residues [active] 634459003932 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 634459003933 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 634459003934 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 634459003935 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 634459003936 dimer interface [polypeptide binding]; other site 634459003937 conserved gate region; other site 634459003938 putative PBP binding loops; other site 634459003939 ABC-ATPase subunit interface; other site 634459003940 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 634459003941 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 634459003942 Walker A/P-loop; other site 634459003943 ATP binding site [chemical binding]; other site 634459003944 Q-loop/lid; other site 634459003945 ABC transporter signature motif; other site 634459003946 Walker B; other site 634459003947 D-loop; other site 634459003948 H-loop/switch region; other site 634459003949 nickel responsive regulator; Provisional; Region: PRK04460 634459003950 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 634459003951 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 634459003952 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 634459003953 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 634459003954 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 634459003955 urea carboxylase; Region: urea_carbox; TIGR02712 634459003956 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 634459003957 ATP-grasp domain; Region: ATP-grasp_4; cl17255 634459003958 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 634459003959 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 634459003960 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 634459003961 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 634459003962 carboxyltransferase (CT) interaction site; other site 634459003963 biotinylation site [posttranslational modification]; other site 634459003964 allophanate hydrolase; Provisional; Region: PRK08186 634459003965 Amidase; Region: Amidase; cl11426 634459003966 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 634459003967 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 634459003968 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 634459003969 Part of AAA domain; Region: AAA_19; pfam13245 634459003970 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 634459003971 AAA domain; Region: AAA_30; pfam13604 634459003972 AAA domain; Region: AAA_12; pfam13087 634459003973 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 634459003974 putative active site [active] 634459003975 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 634459003976 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 634459003977 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 634459003978 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 634459003979 active site 634459003980 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 634459003981 ligand-binding site [chemical binding]; other site 634459003982 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459003983 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 634459003984 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 634459003985 heme ligand [chemical binding]; other site 634459003986 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634459003987 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634459003988 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 634459003989 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 634459003990 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 634459003991 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 634459003992 active site 634459003993 non-prolyl cis peptide bond; other site 634459003994 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634459003995 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 634459003996 Flavin Reductases; Region: FlaRed; cl00801 634459003997 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 634459003998 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 634459003999 putative substrate translocation pore; other site 634459004000 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 634459004001 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 634459004002 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 634459004003 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 634459004004 active site 634459004005 dimer interface [polypeptide binding]; other site 634459004006 non-prolyl cis peptide bond; other site 634459004007 insertion regions; other site 634459004008 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; cl00782 634459004009 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 634459004010 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 634459004011 active site 634459004012 non-prolyl cis peptide bond; other site 634459004013 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 634459004014 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 634459004015 active site 634459004016 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 634459004017 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 634459004018 putative FMN binding site [chemical binding]; other site 634459004019 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459004020 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459004021 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459004022 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634459004023 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634459004024 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 634459004025 DEAD-like helicases superfamily; Region: DEXDc; smart00487 634459004026 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 634459004027 ATP binding site [chemical binding]; other site 634459004028 putative Mg++ binding site [ion binding]; other site 634459004029 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459004030 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 634459004031 Protein of unknown function DUF45; Region: DUF45; pfam01863 634459004032 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 634459004033 DNA-binding interface [nucleotide binding]; DNA binding site 634459004034 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634459004035 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 634459004036 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 634459004037 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634459004038 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 634459004039 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 634459004040 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459004041 HTH-like domain; Region: HTH_21; pfam13276 634459004042 Integrase core domain; Region: rve; pfam00665 634459004043 Integrase core domain; Region: rve_3; pfam13683 634459004044 Transposase; Region: HTH_Tnp_1; pfam01527 634459004045 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459004046 Walker A/P-loop; other site 634459004047 ATP binding site [chemical binding]; other site 634459004048 Q-loop/lid; other site 634459004049 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459004050 ABC transporter signature motif; other site 634459004051 Walker B; other site 634459004052 D-loop; other site 634459004053 H-loop/switch region; other site 634459004054 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459004055 AAA domain; Region: AAA_21; pfam13304 634459004056 Walker A/P-loop; other site 634459004057 ATP binding site [chemical binding]; other site 634459004058 Q-loop/lid; other site 634459004059 ABC transporter signature motif; other site 634459004060 Walker B; other site 634459004061 D-loop; other site 634459004062 H-loop/switch region; other site 634459004063 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 634459004064 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 634459004065 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 634459004066 glutaredoxin 2; Provisional; Region: PRK10387 634459004067 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 634459004068 C-terminal domain interface [polypeptide binding]; other site 634459004069 GSH binding site (G-site) [chemical binding]; other site 634459004070 catalytic residues [active] 634459004071 putative dimer interface [polypeptide binding]; other site 634459004072 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 634459004073 N-terminal domain interface [polypeptide binding]; other site 634459004074 polyol permease family; Region: 2A0118; TIGR00897 634459004075 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 634459004076 putative substrate translocation pore; other site 634459004077 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 634459004078 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 634459004079 active site 634459004080 SAM binding site [chemical binding]; other site 634459004081 homodimer interface [polypeptide binding]; other site 634459004082 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 634459004083 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 634459004084 active site 634459004085 putative homodimer interface [polypeptide binding]; other site 634459004086 SAM binding site [chemical binding]; other site 634459004087 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 634459004088 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 634459004089 S-adenosylmethionine binding site [chemical binding]; other site 634459004090 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 634459004091 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 634459004092 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 634459004093 active site 634459004094 SAM binding site [chemical binding]; other site 634459004095 homodimer interface [polypeptide binding]; other site 634459004096 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 634459004097 active site 634459004098 SAM binding site [chemical binding]; other site 634459004099 homodimer interface [polypeptide binding]; other site 634459004100 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 634459004101 Precorrin-8X methylmutase; Region: CbiC; pfam02570 634459004102 precorrin-3B synthase; Region: CobG; TIGR02435 634459004103 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 634459004104 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 634459004105 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 634459004106 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 634459004107 fumarate hydratase; Reviewed; Region: fumC; PRK00485 634459004108 Class II fumarases; Region: Fumarase_classII; cd01362 634459004109 active site 634459004110 tetramer interface [polypeptide binding]; other site 634459004111 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 634459004112 GAF domain; Region: GAF; cl17456 634459004113 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 634459004114 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 634459004115 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 634459004116 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 634459004117 Trp docking motif [polypeptide binding]; other site 634459004118 putative active site [active] 634459004119 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 634459004120 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 634459004121 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 634459004122 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 634459004123 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 634459004124 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 634459004125 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 634459004126 Domain of unknown function DUF20; Region: UPF0118; pfam01594 634459004127 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 634459004128 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 634459004129 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 634459004130 propionate/acetate kinase; Provisional; Region: PRK12379 634459004131 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 634459004132 phosphate acetyltransferase; Provisional; Region: PRK11890 634459004133 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 634459004134 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 634459004135 phosphate binding site [ion binding]; other site 634459004136 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 634459004137 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 634459004138 dimer interface [polypeptide binding]; other site 634459004139 PYR/PP interface [polypeptide binding]; other site 634459004140 TPP binding site [chemical binding]; other site 634459004141 substrate binding site [chemical binding]; other site 634459004142 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 634459004143 Domain of unknown function; Region: EKR; pfam10371 634459004144 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 634459004145 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 634459004146 TPP-binding site [chemical binding]; other site 634459004147 dimer interface [polypeptide binding]; other site 634459004148 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 634459004149 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634459004150 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634459004151 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 634459004152 Ca2+ binding site [ion binding]; other site 634459004153 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634459004154 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634459004155 Predicted membrane protein [Function unknown]; Region: COG1971 634459004156 Domain of unknown function DUF; Region: DUF204; pfam02659 634459004157 Domain of unknown function DUF; Region: DUF204; pfam02659 634459004158 glutathionine S-transferase; Provisional; Region: PRK10542 634459004159 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 634459004160 C-terminal domain interface [polypeptide binding]; other site 634459004161 GSH binding site (G-site) [chemical binding]; other site 634459004162 dimer interface [polypeptide binding]; other site 634459004163 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 634459004164 dimer interface [polypeptide binding]; other site 634459004165 N-terminal domain interface [polypeptide binding]; other site 634459004166 substrate binding pocket (H-site) [chemical binding]; other site 634459004167 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 634459004168 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 634459004169 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 634459004170 GTP binding site; other site 634459004171 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 634459004172 Walker A motif; other site 634459004173 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 634459004174 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 634459004175 dimer interface [polypeptide binding]; other site 634459004176 putative functional site; other site 634459004177 putative MPT binding site; other site 634459004178 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 634459004179 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 634459004180 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 634459004181 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 634459004182 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 634459004183 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 634459004184 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 634459004185 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 634459004186 [4Fe-4S] binding site [ion binding]; other site 634459004187 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 634459004188 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 634459004189 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 634459004190 molybdopterin cofactor binding site; other site 634459004191 exopolyphosphatase; Region: exo_poly_only; TIGR03706 634459004192 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 634459004193 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 634459004194 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 634459004195 S-adenosylmethionine binding site [chemical binding]; other site 634459004196 fructokinase; Reviewed; Region: PRK09557 634459004197 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 634459004198 nucleotide binding site [chemical binding]; other site 634459004199 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 634459004200 CPxP motif; other site 634459004201 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 634459004202 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 634459004203 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 634459004204 substrate binding pocket [chemical binding]; other site 634459004205 chain length determination region; other site 634459004206 substrate-Mg2+ binding site; other site 634459004207 catalytic residues [active] 634459004208 aspartate-rich region 1; other site 634459004209 active site lid residues [active] 634459004210 aspartate-rich region 2; other site 634459004211 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 634459004212 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 634459004213 TPP-binding site; other site 634459004214 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 634459004215 PYR/PP interface [polypeptide binding]; other site 634459004216 dimer interface [polypeptide binding]; other site 634459004217 TPP binding site [chemical binding]; other site 634459004218 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634459004219 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 634459004220 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 634459004221 RNA binding surface [nucleotide binding]; other site 634459004222 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 634459004223 S-adenosylmethionine binding site [chemical binding]; other site 634459004224 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 634459004225 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 634459004226 FeS/SAM binding site; other site 634459004227 argininosuccinate synthase; Provisional; Region: PRK13820 634459004228 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 634459004229 ANP binding site [chemical binding]; other site 634459004230 Substrate Binding Site II [chemical binding]; other site 634459004231 Substrate Binding Site I [chemical binding]; other site 634459004232 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 634459004233 Cytochrome c; Region: Cytochrom_C; pfam00034 634459004234 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 634459004235 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 634459004236 active site 634459004237 HIGH motif; other site 634459004238 dimer interface [polypeptide binding]; other site 634459004239 KMSKS motif; other site 634459004240 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 634459004241 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634459004242 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 634459004243 active site 634459004244 phosphorylation site [posttranslational modification] 634459004245 intermolecular recognition site; other site 634459004246 dimerization interface [polypeptide binding]; other site 634459004247 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 634459004248 DNA binding site [nucleotide binding] 634459004249 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 634459004250 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 634459004251 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 634459004252 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 634459004253 S-adenosylmethionine binding site [chemical binding]; other site 634459004254 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 634459004255 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 634459004256 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 634459004257 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 634459004258 active site 634459004259 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 634459004260 The substrate-binding domain of an oligopeptide binding protein (OppA2) from the biosynthesis pathway of the beta-lactamase inhibitor clavulanic acid contains the type 2 periplasmic binding fold; Region: PBP2_clavulanate_OppA2; cd08506 634459004261 peptide binding site [polypeptide binding]; other site 634459004262 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 634459004263 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 634459004264 dimer interface [polypeptide binding]; other site 634459004265 conserved gate region; other site 634459004266 ABC-ATPase subunit interface; other site 634459004267 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 634459004268 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 634459004269 dimer interface [polypeptide binding]; other site 634459004270 conserved gate region; other site 634459004271 putative PBP binding loops; other site 634459004272 ABC-ATPase subunit interface; other site 634459004273 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 634459004274 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 634459004275 Walker A/P-loop; other site 634459004276 ATP binding site [chemical binding]; other site 634459004277 Q-loop/lid; other site 634459004278 ABC transporter signature motif; other site 634459004279 Walker B; other site 634459004280 D-loop; other site 634459004281 H-loop/switch region; other site 634459004282 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 634459004283 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 634459004284 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 634459004285 Walker A/P-loop; other site 634459004286 ATP binding site [chemical binding]; other site 634459004287 Q-loop/lid; other site 634459004288 ABC transporter signature motif; other site 634459004289 Walker B; other site 634459004290 D-loop; other site 634459004291 H-loop/switch region; other site 634459004292 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 634459004293 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 634459004294 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 634459004295 FMN binding site [chemical binding]; other site 634459004296 substrate binding site [chemical binding]; other site 634459004297 putative catalytic residue [active] 634459004298 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 634459004299 active site 634459004300 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 634459004301 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2; cl00208 634459004302 CAS motifs; other site 634459004303 active site 634459004304 Purine nucleoside permease (NUP); Region: NUP; pfam06516 634459004305 Phosphoesterase family; Region: Phosphoesterase; pfam04185 634459004306 Phosphoesterase family; Region: Phosphoesterase; pfam04185 634459004307 Domain of unknown function (DUF756); Region: DUF756; pfam05506 634459004308 Domain of unknown function (DUF756); Region: DUF756; pfam05506 634459004309 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634459004310 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 634459004311 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 634459004312 Tannase and feruloyl esterase; Region: Tannase; pfam07519 634459004313 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 634459004314 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 634459004315 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634459004316 putative substrate translocation pore; other site 634459004317 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 634459004318 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 634459004319 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 634459004320 FAD binding pocket [chemical binding]; other site 634459004321 FAD binding motif [chemical binding]; other site 634459004322 phosphate binding motif [ion binding]; other site 634459004323 NAD binding pocket [chemical binding]; other site 634459004324 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 634459004325 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 634459004326 S-adenosylmethionine binding site [chemical binding]; other site 634459004327 Predicted transcriptional regulators [Transcription]; Region: COG1695 634459004328 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 634459004329 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634459004330 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 634459004331 multidrug resistance protein MdtN; Provisional; Region: PRK10476 634459004332 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634459004333 HlyD family secretion protein; Region: HlyD_3; pfam13437 634459004334 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634459004335 Outer membrane efflux protein; Region: OEP; pfam02321 634459004336 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 634459004337 B12 binding site [chemical binding]; other site 634459004338 Radical SAM superfamily; Region: Radical_SAM; pfam04055 634459004339 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 634459004340 FeS/SAM binding site; other site 634459004341 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 634459004342 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 634459004343 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 634459004344 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 634459004345 N-terminal plug; other site 634459004346 ligand-binding site [chemical binding]; other site 634459004347 Conserved TM helix; Region: TM_helix; pfam05552 634459004348 Mechanosensitive ion channel; Region: MS_channel; pfam00924 634459004349 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 634459004350 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 634459004351 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 634459004352 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 634459004353 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 634459004354 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 634459004355 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459004356 Walker A/P-loop; other site 634459004357 ATP binding site [chemical binding]; other site 634459004358 Q-loop/lid; other site 634459004359 ABC transporter signature motif; other site 634459004360 Walker B; other site 634459004361 D-loop; other site 634459004362 H-loop/switch region; other site 634459004363 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 634459004364 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634459004365 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459004366 Walker A/P-loop; other site 634459004367 ATP binding site [chemical binding]; other site 634459004368 Q-loop/lid; other site 634459004369 ABC transporter signature motif; other site 634459004370 Walker B; other site 634459004371 D-loop; other site 634459004372 H-loop/switch region; other site 634459004373 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 634459004374 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 634459004375 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 634459004376 N-terminal plug; other site 634459004377 ligand-binding site [chemical binding]; other site 634459004378 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 634459004379 Sel1-like repeats; Region: SEL1; smart00671 634459004380 Sel1-like repeats; Region: SEL1; smart00671 634459004381 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459004382 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459004383 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 634459004384 active site 634459004385 homotetramer interface [polypeptide binding]; other site 634459004386 homodimer interface [polypeptide binding]; other site 634459004387 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 634459004388 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 634459004389 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459004390 homodimer interface [polypeptide binding]; other site 634459004391 catalytic residue [active] 634459004392 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 634459004393 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 634459004394 TrkA-C domain; Region: TrkA_C; pfam02080 634459004395 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 634459004396 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 634459004397 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 634459004398 active site 634459004399 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 634459004400 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 634459004401 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 634459004402 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459004403 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 634459004404 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634459004405 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459004406 Walker A/P-loop; other site 634459004407 ATP binding site [chemical binding]; other site 634459004408 Q-loop/lid; other site 634459004409 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634459004410 ABC transporter signature motif; other site 634459004411 Walker B; other site 634459004412 ABC transporter; Region: ABC_tran_2; pfam12848 634459004413 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634459004414 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634459004415 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459004416 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 634459004417 dimerization interface [polypeptide binding]; other site 634459004418 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459004419 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cd00253 634459004420 Hint domain; Region: Hint_2; pfam13403 634459004421 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634459004422 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 634459004423 N-terminal plug; other site 634459004424 ligand-binding site [chemical binding]; other site 634459004425 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 634459004426 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 634459004427 putative NAD(P) binding site [chemical binding]; other site 634459004428 putative substrate binding site [chemical binding]; other site 634459004429 catalytic Zn binding site [ion binding]; other site 634459004430 structural Zn binding site [ion binding]; other site 634459004431 dimer interface [polypeptide binding]; other site 634459004432 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459004433 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 634459004434 SnoaL-like domain; Region: SnoaL_2; pfam12680 634459004435 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 634459004436 dimerization interface [polypeptide binding]; other site 634459004437 metal binding site [ion binding]; metal-binding site 634459004438 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 634459004439 catalytic core [active] 634459004440 MgtC family; Region: MgtC; pfam02308 634459004441 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 634459004442 putative CoA-transferase; Provisional; Region: PRK11430 634459004443 CoA-transferase family III; Region: CoA_transf_3; pfam02515 634459004444 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 634459004445 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459004446 oxalyl-CoA decarboxylase; Region: oxalate_oxc; TIGR03254 634459004447 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 634459004448 PYR/PP interface [polypeptide binding]; other site 634459004449 dimer interface [polypeptide binding]; other site 634459004450 TPP binding site [chemical binding]; other site 634459004451 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634459004452 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 634459004453 TPP-binding site; other site 634459004454 dimer interface [polypeptide binding]; other site 634459004455 formyl-coenzyme A transferase; Provisional; Region: PRK05398 634459004456 CoA-transferase family III; Region: CoA_transf_3; pfam02515 634459004457 oxidoreductase; Provisional; Region: PRK12742 634459004458 classical (c) SDRs; Region: SDR_c; cd05233 634459004459 NAD(P) binding site [chemical binding]; other site 634459004460 active site 634459004461 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634459004462 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634459004463 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 634459004464 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634459004465 NAD(P) binding site [chemical binding]; other site 634459004466 active site 634459004467 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 634459004468 putative hydrophobic ligand binding site [chemical binding]; other site 634459004469 protein interface [polypeptide binding]; other site 634459004470 gate; other site 634459004471 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 634459004472 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634459004473 putative substrate translocation pore; other site 634459004474 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 634459004475 phosphoglucomutase; Validated; Region: PRK07564 634459004476 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 634459004477 active site 634459004478 substrate binding site [chemical binding]; other site 634459004479 metal binding site [ion binding]; metal-binding site 634459004480 maltose O-acetyltransferase; Provisional; Region: PRK10092 634459004481 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 634459004482 active site 634459004483 substrate binding site [chemical binding]; other site 634459004484 trimer interface [polypeptide binding]; other site 634459004485 CoA binding site [chemical binding]; other site 634459004486 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 634459004487 Hint domain; Region: Hint_2; pfam13403 634459004488 HTH-like domain; Region: HTH_21; pfam13276 634459004489 Integrase core domain; Region: rve; pfam00665 634459004490 Integrase core domain; Region: rve_3; pfam13683 634459004491 Transposase; Region: HTH_Tnp_1; pfam01527 634459004492 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 634459004493 FecR protein; Region: FecR; pfam04773 634459004494 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 634459004495 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 634459004496 DNA binding residues [nucleotide binding] 634459004497 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 634459004498 sensor protein QseC; Provisional; Region: PRK10337 634459004499 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634459004500 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 634459004501 dimer interface [polypeptide binding]; other site 634459004502 phosphorylation site [posttranslational modification] 634459004503 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634459004504 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 634459004505 active site 634459004506 phosphorylation site [posttranslational modification] 634459004507 intermolecular recognition site; other site 634459004508 dimerization interface [polypeptide binding]; other site 634459004509 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 634459004510 DNA binding site [nucleotide binding] 634459004511 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 634459004512 HlyD family secretion protein; Region: HlyD_2; pfam12700 634459004513 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634459004514 HlyD family secretion protein; Region: HlyD_3; pfam13437 634459004515 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 634459004516 Outer membrane efflux protein; Region: OEP; pfam02321 634459004517 acyl-CoA synthetase; Validated; Region: PRK09192 634459004518 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 634459004519 acyl-activating enzyme (AAE) consensus motif; other site 634459004520 active site 634459004521 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 634459004522 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 634459004523 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 634459004524 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634459004525 catalytic residue [active] 634459004526 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 634459004527 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 634459004528 active site 634459004529 metal binding site [ion binding]; metal-binding site 634459004530 Predicted permeases [General function prediction only]; Region: COG0795 634459004531 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 634459004532 Predicted permeases [General function prediction only]; Region: COG0795 634459004533 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 634459004534 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 634459004535 active site 634459004536 MobA-like NTP transferase domain; Region: NTP_transf_3; pfam12804 634459004537 phosphoglycolate phosphatase; Provisional; Region: PRK13222 634459004538 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 634459004539 motif II; other site 634459004540 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 634459004541 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 634459004542 Substrate binding site; other site 634459004543 Mg++ binding site; other site 634459004544 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 634459004545 active site 634459004546 substrate binding site [chemical binding]; other site 634459004547 CoA binding site [chemical binding]; other site 634459004548 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 634459004549 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 634459004550 glutaminase active site [active] 634459004551 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 634459004552 dimer interface [polypeptide binding]; other site 634459004553 active site 634459004554 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 634459004555 dimer interface [polypeptide binding]; other site 634459004556 active site 634459004557 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634459004558 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459004559 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459004560 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459004561 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459004562 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 634459004563 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 634459004564 Transcriptional regulator [Transcription]; Region: IclR; COG1414 634459004565 Bacterial transcriptional regulator; Region: IclR; pfam01614 634459004566 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 634459004567 catalytic residues [active] 634459004568 dimer interface [polypeptide binding]; other site 634459004569 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 634459004570 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 634459004571 Walker A/P-loop; other site 634459004572 ATP binding site [chemical binding]; other site 634459004573 Q-loop/lid; other site 634459004574 ABC transporter signature motif; other site 634459004575 Walker B; other site 634459004576 D-loop; other site 634459004577 H-loop/switch region; other site 634459004578 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 634459004579 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 634459004580 FtsX-like permease family; Region: FtsX; pfam02687 634459004581 prolyl-tRNA synthetase; Provisional; Region: PRK12325 634459004582 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 634459004583 dimer interface [polypeptide binding]; other site 634459004584 motif 1; other site 634459004585 active site 634459004586 motif 2; other site 634459004587 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 634459004588 active site 634459004589 motif 3; other site 634459004590 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 634459004591 anticodon binding site; other site 634459004592 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 634459004593 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 634459004594 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 634459004595 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 634459004596 nucleotide binding site [chemical binding]; other site 634459004597 Type III pantothenate kinase; Region: Pan_kinase; cl17198 634459004598 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 634459004599 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 634459004600 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 634459004601 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 634459004602 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 634459004603 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 634459004604 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 634459004605 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 634459004606 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 634459004607 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 634459004608 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 634459004609 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 634459004610 4Fe-4S binding domain; Region: Fer4; cl02805 634459004611 4Fe-4S binding domain; Region: Fer4; pfam00037 634459004612 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 634459004613 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 634459004614 NADH dehydrogenase subunit G; Validated; Region: PRK09130 634459004615 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 634459004616 catalytic loop [active] 634459004617 iron binding site [ion binding]; other site 634459004618 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 634459004619 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 634459004620 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 634459004621 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 634459004622 SLBB domain; Region: SLBB; pfam10531 634459004623 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 634459004624 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 634459004625 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 634459004626 putative dimer interface [polypeptide binding]; other site 634459004627 [2Fe-2S] cluster binding site [ion binding]; other site 634459004628 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 634459004629 NADH dehydrogenase subunit D; Validated; Region: PRK06075 634459004630 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 634459004631 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 634459004632 NADH dehydrogenase subunit B; Validated; Region: PRK06411 634459004633 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 634459004634 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 634459004635 IHF dimer interface [polypeptide binding]; other site 634459004636 IHF - DNA interface [nucleotide binding]; other site 634459004637 Found in ATP-dependent protease La (LON); Region: LON; smart00464 634459004638 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 634459004639 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 634459004640 Walker A motif; other site 634459004641 ATP binding site [chemical binding]; other site 634459004642 Walker B motif; other site 634459004643 arginine finger; other site 634459004644 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 634459004645 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 634459004646 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 634459004647 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 634459004648 Walker A motif; other site 634459004649 ATP binding site [chemical binding]; other site 634459004650 Walker B motif; other site 634459004651 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 634459004652 Clp protease; Region: CLP_protease; pfam00574 634459004653 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 634459004654 oligomer interface [polypeptide binding]; other site 634459004655 active site residues [active] 634459004656 trigger factor; Provisional; Region: tig; PRK01490 634459004657 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 634459004658 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 634459004659 Uncharacterized conserved protein [Function unknown]; Region: COG0062 634459004660 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 634459004661 putative substrate binding site [chemical binding]; other site 634459004662 putative ATP binding site [chemical binding]; other site 634459004663 Predicted integral membrane protein [Function unknown]; Region: COG5615 634459004664 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 634459004665 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 634459004666 ATP binding site [chemical binding]; other site 634459004667 Mg++ binding site [ion binding]; other site 634459004668 motif III; other site 634459004669 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 634459004670 nucleotide binding region [chemical binding]; other site 634459004671 ATP-binding site [chemical binding]; other site 634459004672 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 634459004673 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 634459004674 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 634459004675 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 634459004676 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 634459004677 trimerization site [polypeptide binding]; other site 634459004678 active site 634459004679 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 634459004680 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 634459004681 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634459004682 catalytic residue [active] 634459004683 FeS assembly protein SufD; Region: sufD; TIGR01981 634459004684 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 634459004685 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 634459004686 FeS assembly ATPase SufC; Region: sufC; TIGR01978 634459004687 Walker A/P-loop; other site 634459004688 ATP binding site [chemical binding]; other site 634459004689 Q-loop/lid; other site 634459004690 ABC transporter signature motif; other site 634459004691 Walker B; other site 634459004692 D-loop; other site 634459004693 H-loop/switch region; other site 634459004694 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 634459004695 putative ABC transporter; Region: ycf24; CHL00085 634459004696 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 634459004697 Transcriptional regulator; Region: Rrf2; pfam02082 634459004698 Transcriptional regulator; Region: Rrf2; cl17282 634459004699 Protein of unknown function (DUF445); Region: DUF445; pfam04286 634459004700 Peroxin-3; Region: Peroxin-3; pfam04882 634459004701 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 634459004702 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 634459004703 elongation factor G; Reviewed; Region: PRK12739 634459004704 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 634459004705 G1 box; other site 634459004706 putative GEF interaction site [polypeptide binding]; other site 634459004707 GTP/Mg2+ binding site [chemical binding]; other site 634459004708 Switch I region; other site 634459004709 G2 box; other site 634459004710 G3 box; other site 634459004711 Switch II region; other site 634459004712 G4 box; other site 634459004713 G5 box; other site 634459004714 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 634459004715 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 634459004716 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 634459004717 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 634459004718 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634459004719 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 634459004720 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 634459004721 Walker A/P-loop; other site 634459004722 ATP binding site [chemical binding]; other site 634459004723 Q-loop/lid; other site 634459004724 ABC transporter signature motif; other site 634459004725 Walker B; other site 634459004726 D-loop; other site 634459004727 H-loop/switch region; other site 634459004728 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 634459004729 nudix motif; other site 634459004730 PII uridylyl-transferase; Provisional; Region: PRK05092 634459004731 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 634459004732 metal binding triad; other site 634459004733 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 634459004734 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 634459004735 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 634459004736 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 634459004737 MutS domain I; Region: MutS_I; pfam01624 634459004738 MutS domain II; Region: MutS_II; pfam05188 634459004739 MutS domain III; Region: MutS_III; pfam05192 634459004740 MutS domain V; Region: MutS_V; pfam00488 634459004741 Walker A/P-loop; other site 634459004742 ATP binding site [chemical binding]; other site 634459004743 Q-loop/lid; other site 634459004744 ABC transporter signature motif; other site 634459004745 Walker B; other site 634459004746 D-loop; other site 634459004747 H-loop/switch region; other site 634459004748 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 634459004749 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 634459004750 binding surface 634459004751 TPR motif; other site 634459004752 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 634459004753 binding surface 634459004754 TPR motif; other site 634459004755 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 634459004756 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 634459004757 active site 634459004758 Zn binding site [ion binding]; other site 634459004759 Major royal jelly protein; Region: MRJP; pfam03022 634459004760 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 634459004761 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 634459004762 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459004763 catalytic residue [active] 634459004764 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 634459004765 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 634459004766 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 634459004767 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 634459004768 Tim44-like domain; Region: Tim44; pfam04280 634459004769 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 634459004770 UbiA prenyltransferase family; Region: UbiA; pfam01040 634459004771 cytochrome c oxidase subunit I; Provisional; Region: COX1; MTH00182 634459004772 cytochrome c oxidase subunit I; Provisional; Region: COX1; MTH00182 634459004773 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 634459004774 S-adenosylmethionine binding site [chemical binding]; other site 634459004775 glutathione synthetase; Provisional; Region: PRK05246 634459004776 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 634459004777 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 634459004778 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 634459004779 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 634459004780 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 634459004781 Ligand binding site; other site 634459004782 Putative Catalytic site; other site 634459004783 DXD motif; other site 634459004784 Predicted membrane protein [Function unknown]; Region: COG2246 634459004785 GtrA-like protein; Region: GtrA; pfam04138 634459004786 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 634459004787 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 634459004788 putative Zn2+ binding site [ion binding]; other site 634459004789 AsnC family; Region: AsnC_trans_reg; pfam01037 634459004790 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 634459004791 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634459004792 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634459004793 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634459004794 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459004795 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 634459004796 putative effector binding pocket; other site 634459004797 dimerization interface [polypeptide binding]; other site 634459004798 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 634459004799 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 634459004800 IHF - DNA interface [nucleotide binding]; other site 634459004801 IHF dimer interface [polypeptide binding]; other site 634459004802 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 634459004803 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 634459004804 Fe-S cluster binding site [ion binding]; other site 634459004805 active site 634459004806 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 634459004807 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 634459004808 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 634459004809 Domain of unknown function DUF20; Region: UPF0118; pfam01594 634459004810 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 634459004811 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 634459004812 DNA binding residues [nucleotide binding] 634459004813 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 634459004814 IHF - DNA interface [nucleotide binding]; other site 634459004815 IHF dimer interface [polypeptide binding]; other site 634459004816 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 634459004817 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 634459004818 dimer interface [polypeptide binding]; other site 634459004819 active site 634459004820 CoA binding pocket [chemical binding]; other site 634459004821 putative phosphate acyltransferase; Provisional; Region: PRK05331 634459004822 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 634459004823 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 634459004824 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 634459004825 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 634459004826 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 634459004827 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 634459004828 dimerization interface [polypeptide binding]; other site 634459004829 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 634459004830 ATP binding site [chemical binding]; other site 634459004831 Mg2+ binding site [ion binding]; other site 634459004832 G-X-G motif; other site 634459004833 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634459004834 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 634459004835 active site 634459004836 phosphorylation site [posttranslational modification] 634459004837 intermolecular recognition site; other site 634459004838 dimerization interface [polypeptide binding]; other site 634459004839 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 634459004840 DNA binding site [nucleotide binding] 634459004841 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 634459004842 MarR family; Region: MarR_2; pfam12802 634459004843 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 634459004844 COQ9; Region: COQ9; pfam08511 634459004845 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 634459004846 active site 634459004847 catalytic residues [active] 634459004848 metal binding site [ion binding]; metal-binding site 634459004849 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 634459004850 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 634459004851 tartrate dehydrogenase; Region: TTC; TIGR02089 634459004852 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 634459004853 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 634459004854 substrate binding site [chemical binding]; other site 634459004855 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 634459004856 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 634459004857 substrate binding site [chemical binding]; other site 634459004858 ligand binding site [chemical binding]; other site 634459004859 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 634459004860 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 634459004861 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 634459004862 RimM N-terminal domain; Region: RimM; pfam01782 634459004863 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 634459004864 signal recognition particle protein; Provisional; Region: PRK10867 634459004865 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 634459004866 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 634459004867 P loop; other site 634459004868 GTP binding site [chemical binding]; other site 634459004869 Signal peptide binding domain; Region: SRP_SPB; pfam02978 634459004870 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 634459004871 dimer interface [polypeptide binding]; other site 634459004872 ATP12 chaperone protein; Region: ATP12; pfam07542 634459004873 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 634459004874 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 634459004875 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 634459004876 RNA binding surface [nucleotide binding]; other site 634459004877 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 634459004878 active site 634459004879 recombination factor protein RarA; Reviewed; Region: PRK13342 634459004880 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 634459004881 Walker A motif; other site 634459004882 ATP binding site [chemical binding]; other site 634459004883 Walker B motif; other site 634459004884 arginine finger; other site 634459004885 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 634459004886 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 634459004887 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 634459004888 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 634459004889 UbiA prenyltransferase family; Region: UbiA; pfam01040 634459004890 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 634459004891 RNA methyltransferase, RsmE family; Region: TIGR00046 634459004892 glutamate--cysteine ligase; Region: PLN02611 634459004893 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 634459004894 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634459004895 putative substrate translocation pore; other site 634459004896 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 634459004897 GTP-binding protein Der; Reviewed; Region: PRK00093 634459004898 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 634459004899 G1 box; other site 634459004900 GTP/Mg2+ binding site [chemical binding]; other site 634459004901 Switch I region; other site 634459004902 G2 box; other site 634459004903 Switch II region; other site 634459004904 G3 box; other site 634459004905 G4 box; other site 634459004906 G5 box; other site 634459004907 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 634459004908 G1 box; other site 634459004909 GTP/Mg2+ binding site [chemical binding]; other site 634459004910 Switch I region; other site 634459004911 G2 box; other site 634459004912 G3 box; other site 634459004913 Switch II region; other site 634459004914 G4 box; other site 634459004915 G5 box; other site 634459004916 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 634459004917 Trp docking motif [polypeptide binding]; other site 634459004918 active site 634459004919 PQQ-like domain; Region: PQQ_2; pfam13360 634459004920 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 634459004921 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 634459004922 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 634459004923 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 634459004924 putative active site [active] 634459004925 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 634459004926 putative ADP-binding pocket [chemical binding]; other site 634459004927 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634459004928 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 634459004929 active site 634459004930 dimer interface [polypeptide binding]; other site 634459004931 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 634459004932 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 634459004933 Ligand Binding Site [chemical binding]; other site 634459004934 Molecular Tunnel; other site 634459004935 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 634459004936 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 634459004937 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 634459004938 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 634459004939 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 634459004940 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 634459004941 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 634459004942 Sulfate transporter family; Region: Sulfate_transp; pfam00916 634459004943 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 634459004944 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 634459004945 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 634459004946 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 634459004947 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 634459004948 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 634459004949 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 634459004950 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 634459004951 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 634459004952 Clp amino terminal domain; Region: Clp_N; pfam02861 634459004953 Clp amino terminal domain; Region: Clp_N; pfam02861 634459004954 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 634459004955 Walker A motif; other site 634459004956 ATP binding site [chemical binding]; other site 634459004957 Walker B motif; other site 634459004958 arginine finger; other site 634459004959 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 634459004960 Walker A motif; other site 634459004961 ATP binding site [chemical binding]; other site 634459004962 Walker B motif; other site 634459004963 arginine finger; other site 634459004964 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 634459004965 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 634459004966 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 634459004967 nudix motif; other site 634459004968 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 634459004969 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 634459004970 HflX GTPase family; Region: HflX; cd01878 634459004971 G1 box; other site 634459004972 GTP/Mg2+ binding site [chemical binding]; other site 634459004973 Switch I region; other site 634459004974 G2 box; other site 634459004975 G3 box; other site 634459004976 Switch II region; other site 634459004977 G4 box; other site 634459004978 G5 box; other site 634459004979 bacterial Hfq-like; Region: Hfq; cd01716 634459004980 hexamer interface [polypeptide binding]; other site 634459004981 Sm1 motif; other site 634459004982 RNA binding site [nucleotide binding]; other site 634459004983 Sm2 motif; other site 634459004984 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 634459004985 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 634459004986 active site 634459004987 phosphorylation site [posttranslational modification] 634459004988 intermolecular recognition site; other site 634459004989 dimerization interface [polypeptide binding]; other site 634459004990 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 634459004991 Walker A motif; other site 634459004992 ATP binding site [chemical binding]; other site 634459004993 Walker B motif; other site 634459004994 arginine finger; other site 634459004995 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 634459004996 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 634459004997 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 634459004998 dimerization interface [polypeptide binding]; other site 634459004999 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 634459005000 dimer interface [polypeptide binding]; other site 634459005001 phosphorylation site [posttranslational modification] 634459005002 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 634459005003 ATP binding site [chemical binding]; other site 634459005004 Mg2+ binding site [ion binding]; other site 634459005005 G-X-G motif; other site 634459005006 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 634459005007 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 634459005008 active site 634459005009 phosphorylation site [posttranslational modification] 634459005010 intermolecular recognition site; other site 634459005011 dimerization interface [polypeptide binding]; other site 634459005012 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 634459005013 Walker A motif; other site 634459005014 ATP binding site [chemical binding]; other site 634459005015 Walker B motif; other site 634459005016 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 634459005017 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 634459005018 PAS domain; Region: PAS; smart00091 634459005019 putative active site [active] 634459005020 heme pocket [chemical binding]; other site 634459005021 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 634459005022 dimer interface [polypeptide binding]; other site 634459005023 phosphorylation site [posttranslational modification] 634459005024 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 634459005025 ATP binding site [chemical binding]; other site 634459005026 Mg2+ binding site [ion binding]; other site 634459005027 G-X-G motif; other site 634459005028 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 634459005029 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 634459005030 FMN binding site [chemical binding]; other site 634459005031 active site 634459005032 catalytic residues [active] 634459005033 substrate binding site [chemical binding]; other site 634459005034 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 634459005035 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 634459005036 substrate binding site; other site 634459005037 dimer interface; other site 634459005038 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 634459005039 homotrimer interaction site [polypeptide binding]; other site 634459005040 zinc binding site [ion binding]; other site 634459005041 CDP-binding sites; other site 634459005042 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 634459005043 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 634459005044 Ligand binding site; other site 634459005045 Putative Catalytic site; other site 634459005046 DXD motif; other site 634459005047 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 634459005048 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 634459005049 active site 634459005050 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 634459005051 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 634459005052 UDP-galactopyranose mutase; Region: GLF; pfam03275 634459005053 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 634459005054 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 634459005055 active site 634459005056 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 634459005057 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634459005058 active site 634459005059 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634459005060 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 634459005061 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634459005062 active site 634459005063 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 634459005064 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 634459005065 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 634459005066 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 634459005067 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 634459005068 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 634459005069 Probable transposase; Region: OrfB_IS605; pfam01385 634459005070 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 634459005071 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 634459005072 Nitrogen regulatory protein P-II; Region: P-II; smart00938 634459005073 serine acetyltransferase; Provisional; Region: cysE; PRK11132 634459005074 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 634459005075 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 634459005076 trimer interface [polypeptide binding]; other site 634459005077 active site 634459005078 substrate binding site [chemical binding]; other site 634459005079 CoA binding site [chemical binding]; other site 634459005080 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 634459005081 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 634459005082 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 634459005083 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 634459005084 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 634459005085 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 634459005086 DDE superfamily endonuclease; Region: DDE_5; cl17874 634459005087 elongation factor P; Validated; Region: PRK00529 634459005088 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 634459005089 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 634459005090 RNA binding site [nucleotide binding]; other site 634459005091 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 634459005092 RNA binding site [nucleotide binding]; other site 634459005093 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 634459005094 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 634459005095 active site 634459005096 dimerization interface [polypeptide binding]; other site 634459005097 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 634459005098 ATP binding site [chemical binding]; other site 634459005099 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 634459005100 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 634459005101 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 634459005102 DNA-binding site [nucleotide binding]; DNA binding site 634459005103 RNA-binding motif; other site 634459005104 Dienelactone hydrolase family; Region: DLH; pfam01738 634459005105 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 634459005106 oligomerisation interface [polypeptide binding]; other site 634459005107 mobile loop; other site 634459005108 roof hairpin; other site 634459005109 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 634459005110 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 634459005111 ring oligomerisation interface [polypeptide binding]; other site 634459005112 ATP/Mg binding site [chemical binding]; other site 634459005113 stacking interactions; other site 634459005114 hinge regions; other site 634459005115 FkbH-like domain; Region: FkbH; TIGR01686 634459005116 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 634459005117 active site 634459005118 motif I; other site 634459005119 motif II; other site 634459005120 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634459005121 Transposase; Region: HTH_Tnp_1; pfam01527 634459005122 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 634459005123 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634459005124 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 634459005125 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634459005126 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 634459005127 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 634459005128 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 634459005129 Transposase domain (DUF772); Region: DUF772; pfam05598 634459005130 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459005131 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 634459005132 HTH-like domain; Region: HTH_21; pfam13276 634459005133 Integrase core domain; Region: rve; pfam00665 634459005134 Integrase core domain; Region: rve_3; pfam13683 634459005135 Transposase; Region: HTH_Tnp_1; pfam01527 634459005136 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459005137 Transposase domain (DUF772); Region: DUF772; pfam05598 634459005138 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 634459005139 Ligand binding site; other site 634459005140 Phosphotransferase enzyme family; Region: APH; pfam01636 634459005141 capsule biosynthesis phosphatase; Region: EcbF-BcbF; TIGR01689 634459005142 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634459005143 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459005144 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 634459005145 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459005146 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 634459005147 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459005148 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 634459005149 GDP-Fucose binding site [chemical binding]; other site 634459005150 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 634459005151 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 634459005152 substrate binding site; other site 634459005153 tetramer interface; other site 634459005154 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 634459005155 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 634459005156 NAD binding site [chemical binding]; other site 634459005157 substrate binding site [chemical binding]; other site 634459005158 homodimer interface [polypeptide binding]; other site 634459005159 active site 634459005160 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634459005161 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 634459005162 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459005163 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459005164 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459005165 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634459005166 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459005167 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459005168 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634459005169 Transposase domain (DUF772); Region: DUF772; pfam05598 634459005170 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459005171 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 634459005172 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634459005173 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 634459005174 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 634459005175 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 634459005176 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 634459005177 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634459005178 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634459005179 Transposase; Region: HTH_Tnp_1; pfam01527 634459005180 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 634459005181 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 634459005182 active site 634459005183 catalytic triad [active] 634459005184 oxyanion hole [active] 634459005185 Glycosyltransferase family 17; Region: Glyco_transf_17; pfam04724 634459005186 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 634459005187 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 634459005188 Aspartyl protease; Region: Asp_protease_2; pfam13650 634459005189 inhibitor binding site; inhibition site 634459005190 catalytic motif [active] 634459005191 Catalytic residue [active] 634459005192 Active site flap [active] 634459005193 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 634459005194 inhibitor binding site; inhibition site 634459005195 catalytic motif [active] 634459005196 Catalytic residue [active] 634459005197 Active site flap [active] 634459005198 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 634459005199 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 634459005200 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 634459005201 active site 634459005202 DNA binding site [nucleotide binding] 634459005203 Int/Topo IB signature motif; other site 634459005204 primosome assembly protein PriA; Validated; Region: PRK05580 634459005205 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 634459005206 ATP binding site [chemical binding]; other site 634459005207 putative Mg++ binding site [ion binding]; other site 634459005208 Preprotein translocase subunit; Region: YajC; pfam02699 634459005209 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 634459005210 Protein of unknown function (DUF815); Region: DUF815; pfam05673 634459005211 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 634459005212 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 634459005213 [2Fe-2S] cluster binding site [ion binding]; other site 634459005214 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 634459005215 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634459005216 Coenzyme A binding pocket [chemical binding]; other site 634459005217 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 634459005218 active site 634459005219 8-oxo-dGMP binding site [chemical binding]; other site 634459005220 nudix motif; other site 634459005221 metal binding site [ion binding]; metal-binding site 634459005222 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 634459005223 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 634459005224 Substrate binding site; other site 634459005225 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 634459005226 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 634459005227 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 634459005228 homodimer interface [polypeptide binding]; other site 634459005229 substrate-cofactor binding pocket; other site 634459005230 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459005231 catalytic residue [active] 634459005232 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 634459005233 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 634459005234 GTP cyclohydrolase I; Provisional; Region: PLN03044 634459005235 active site 634459005236 intracellular protease, PfpI family; Region: PfpI; TIGR01382 634459005237 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 634459005238 conserved cys residue [active] 634459005239 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 634459005240 MPT binding site; other site 634459005241 trimer interface [polypeptide binding]; other site 634459005242 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634459005243 Uncharacterized conserved protein [Function unknown]; Region: COG4717 634459005244 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 634459005245 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 634459005246 active site 634459005247 metal binding site [ion binding]; metal-binding site 634459005248 DNA binding site [nucleotide binding] 634459005249 Fusaric acid resistance protein family; Region: FUSC; pfam04632 634459005250 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 634459005251 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 634459005252 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 634459005253 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634459005254 HlyD family secretion protein; Region: HlyD_3; pfam13437 634459005255 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 634459005256 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 634459005257 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 634459005258 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 634459005259 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 634459005260 homopentamer interface [polypeptide binding]; other site 634459005261 active site 634459005262 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 634459005263 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 634459005264 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 634459005265 dimerization interface [polypeptide binding]; other site 634459005266 active site 634459005267 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 634459005268 Lumazine binding domain; Region: Lum_binding; pfam00677 634459005269 Lumazine binding domain; Region: Lum_binding; pfam00677 634459005270 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 634459005271 catalytic motif [active] 634459005272 Zn binding site [ion binding]; other site 634459005273 RibD C-terminal domain; Region: RibD_C; cl17279 634459005274 cytochrome b; Provisional; Region: CYTB; MTH00145 634459005275 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 634459005276 Qi binding site; other site 634459005277 intrachain domain interface; other site 634459005278 interchain domain interface [polypeptide binding]; other site 634459005279 heme bH binding site [chemical binding]; other site 634459005280 heme bL binding site [chemical binding]; other site 634459005281 Qo binding site; other site 634459005282 interchain domain interface [polypeptide binding]; other site 634459005283 intrachain domain interface; other site 634459005284 Qi binding site; other site 634459005285 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 634459005286 Qo binding site; other site 634459005287 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 634459005288 Cytochrome c; Region: Cytochrom_C; cl11414 634459005289 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 634459005290 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 634459005291 [2Fe-2S] cluster binding site [ion binding]; other site 634459005292 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 634459005293 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 634459005294 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 634459005295 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 634459005296 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 634459005297 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 634459005298 Hint domain; Region: Hint_2; pfam13403 634459005299 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 634459005300 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 634459005301 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459005302 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 634459005303 Predicted helicase [General function prediction only]; Region: COG4889 634459005304 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 634459005305 ATP binding site [chemical binding]; other site 634459005306 putative Mg++ binding site [ion binding]; other site 634459005307 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 634459005308 ATP-binding site [chemical binding]; other site 634459005309 Predicted helicase [General function prediction only]; Region: COG4889 634459005310 Protein of unknown function DUF262; Region: DUF262; pfam03235 634459005311 Uncharacterized conserved protein [Function unknown]; Region: COG1479 634459005312 Protein of unknown function DUF262; Region: DUF262; pfam03235 634459005313 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 634459005314 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 634459005315 HTH-like domain; Region: HTH_21; pfam13276 634459005316 Integrase core domain; Region: rve; pfam00665 634459005317 Integrase core domain; Region: rve_3; pfam13683 634459005318 Transposase; Region: HTH_Tnp_1; pfam01527 634459005319 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 634459005320 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 634459005321 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 634459005322 GTPase CgtA; Reviewed; Region: obgE; PRK12299 634459005323 GTP1/OBG; Region: GTP1_OBG; pfam01018 634459005324 Obg GTPase; Region: Obg; cd01898 634459005325 G1 box; other site 634459005326 GTP/Mg2+ binding site [chemical binding]; other site 634459005327 Switch I region; other site 634459005328 G2 box; other site 634459005329 G3 box; other site 634459005330 Switch II region; other site 634459005331 G4 box; other site 634459005332 G5 box; other site 634459005333 gamma-glutamyl kinase; Provisional; Region: PRK05429 634459005334 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 634459005335 nucleotide binding site [chemical binding]; other site 634459005336 homotetrameric interface [polypeptide binding]; other site 634459005337 putative phosphate binding site [ion binding]; other site 634459005338 putative allosteric binding site; other site 634459005339 PUA domain; Region: PUA; pfam01472 634459005340 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 634459005341 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 634459005342 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 634459005343 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 634459005344 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 634459005345 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 634459005346 substrate binding pocket [chemical binding]; other site 634459005347 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 634459005348 cell division protein MraZ; Reviewed; Region: PRK00326 634459005349 MraZ protein; Region: MraZ; pfam02381 634459005350 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 634459005351 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 634459005352 S-adenosylmethionine binding site [chemical binding]; other site 634459005353 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 634459005354 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 634459005355 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 634459005356 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 634459005357 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 634459005358 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 634459005359 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634459005360 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 634459005361 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 634459005362 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 634459005363 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634459005364 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 634459005365 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 634459005366 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 634459005367 Mg++ binding site [ion binding]; other site 634459005368 putative catalytic motif [active] 634459005369 putative substrate binding site [chemical binding]; other site 634459005370 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 634459005371 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634459005372 cell division protein FtsW; Region: ftsW; TIGR02614 634459005373 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 634459005374 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 634459005375 active site 634459005376 homodimer interface [polypeptide binding]; other site 634459005377 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 634459005378 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 634459005379 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634459005380 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 634459005381 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 634459005382 FAD binding domain; Region: FAD_binding_4; pfam01565 634459005383 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 634459005384 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 634459005385 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 634459005386 ATP-grasp domain; Region: ATP-grasp_4; cl17255 634459005387 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 634459005388 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 634459005389 Cell division protein FtsQ; Region: FtsQ; pfam03799 634459005390 Cell division protein FtsA; Region: FtsA; smart00842 634459005391 cell division protein FtsA; Region: ftsA; TIGR01174 634459005392 Cell division protein FtsA; Region: FtsA; pfam14450 634459005393 cell division protein FtsZ; Validated; Region: PRK09330 634459005394 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 634459005395 nucleotide binding site [chemical binding]; other site 634459005396 SulA interaction site; other site 634459005397 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 634459005398 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 634459005399 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 634459005400 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 634459005401 binding surface 634459005402 TPR motif; other site 634459005403 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 634459005404 Walker A/P-loop; other site 634459005405 ATP binding site [chemical binding]; other site 634459005406 Q-loop/lid; other site 634459005407 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 634459005408 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 634459005409 ABC transporter signature motif; other site 634459005410 Walker B; other site 634459005411 D-loop; other site 634459005412 H-loop/switch region; other site 634459005413 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 634459005414 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 634459005415 nucleotide binding pocket [chemical binding]; other site 634459005416 K-X-D-G motif; other site 634459005417 catalytic site [active] 634459005418 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 634459005419 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 634459005420 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 634459005421 Dimer interface [polypeptide binding]; other site 634459005422 BRCT sequence motif; other site 634459005423 pyruvate phosphate dikinase; Provisional; Region: PRK09279 634459005424 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 634459005425 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 634459005426 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 634459005427 PEP synthetase regulatory protein; Provisional; Region: PRK05339 634459005428 Uncharacterized conserved protein [Function unknown]; Region: COG1739 634459005429 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 634459005430 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 634459005431 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 634459005432 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 634459005433 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 634459005434 active site 634459005435 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 634459005436 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634459005437 active site 634459005438 HIGH motif; other site 634459005439 nucleotide binding site [chemical binding]; other site 634459005440 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 634459005441 active site 634459005442 KMSKS motif; other site 634459005443 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 634459005444 Isochorismatase family; Region: Isochorismatase; pfam00857 634459005445 catalytic triad [active] 634459005446 metal binding site [ion binding]; metal-binding site 634459005447 conserved cis-peptide bond; other site 634459005448 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 634459005449 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 634459005450 metal-binding site [ion binding] 634459005451 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 634459005452 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 634459005453 metal-binding site [ion binding] 634459005454 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 634459005455 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 634459005456 motif II; other site 634459005457 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 634459005458 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 634459005459 Multicopper oxidase; Region: Cu-oxidase; pfam00394 634459005460 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 634459005461 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 634459005462 ketol-acid reductoisomerase; Provisional; Region: PRK05479 634459005463 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 634459005464 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 634459005465 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 634459005466 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 634459005467 putative valine binding site [chemical binding]; other site 634459005468 dimer interface [polypeptide binding]; other site 634459005469 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 634459005470 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 634459005471 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 634459005472 PYR/PP interface [polypeptide binding]; other site 634459005473 dimer interface [polypeptide binding]; other site 634459005474 TPP binding site [chemical binding]; other site 634459005475 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634459005476 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 634459005477 TPP-binding site [chemical binding]; other site 634459005478 dimer interface [polypeptide binding]; other site 634459005479 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 634459005480 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 634459005481 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 634459005482 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 634459005483 motif II; other site 634459005484 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 634459005485 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 634459005486 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 634459005487 ATP binding site [chemical binding]; other site 634459005488 putative Mg++ binding site [ion binding]; other site 634459005489 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 634459005490 nucleotide binding region [chemical binding]; other site 634459005491 ATP-binding site [chemical binding]; other site 634459005492 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634459005493 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 634459005494 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634459005495 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 634459005496 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 634459005497 active site 634459005498 Zn binding site [ion binding]; other site 634459005499 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 634459005500 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 634459005501 dimer interface [polypeptide binding]; other site 634459005502 active site 634459005503 glycine-pyridoxal phosphate binding site [chemical binding]; other site 634459005504 folate binding site [chemical binding]; other site 634459005505 amino acid transporter; Region: 2A0306; TIGR00909 634459005506 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 634459005507 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_aspartate_rich; cd04823 634459005508 dimer interface [polypeptide binding]; other site 634459005509 allosteric magnesium binding site [ion binding]; other site 634459005510 active site 634459005511 aspartate-rich active site metal binding site; other site 634459005512 Schiff base residues; other site 634459005513 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 634459005514 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 634459005515 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 634459005516 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 634459005517 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 634459005518 CAP-like domain; other site 634459005519 active site 634459005520 primary dimer interface [polypeptide binding]; other site 634459005521 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 634459005522 Recombination protein O N terminal; Region: RecO_N; pfam11967 634459005523 Recombination protein O C terminal; Region: RecO_C; pfam02565 634459005524 elongation factor Ts; Provisional; Region: tsf; PRK09377 634459005525 UBA/TS-N domain; Region: UBA; pfam00627 634459005526 Elongation factor TS; Region: EF_TS; pfam00889 634459005527 Elongation factor TS; Region: EF_TS; pfam00889 634459005528 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 634459005529 rRNA interaction site [nucleotide binding]; other site 634459005530 S8 interaction site; other site 634459005531 putative laminin-1 binding site; other site 634459005532 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 634459005533 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 634459005534 [2Fe-2S] cluster binding site [ion binding]; other site 634459005535 Selenoprotein P, N terminal region; Region: SelP_N; pfam04592 634459005536 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 634459005537 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 634459005538 homodimer interface [polypeptide binding]; other site 634459005539 substrate-cofactor binding pocket; other site 634459005540 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459005541 catalytic residue [active] 634459005542 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 634459005543 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 634459005544 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 634459005545 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 634459005546 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 634459005547 putative active site [active] 634459005548 putative PHP Thumb interface [polypeptide binding]; other site 634459005549 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 634459005550 generic binding surface II; other site 634459005551 generic binding surface I; other site 634459005552 Pantoate-beta-alanine ligase; Region: PanC; cd00560 634459005553 pantoate--beta-alanine ligase; Region: panC; TIGR00018 634459005554 active site 634459005555 ATP-binding site [chemical binding]; other site 634459005556 pantoate-binding site; other site 634459005557 HXXH motif; other site 634459005558 This group of proteins belong to a large family of YjgF/YER057c/UK114-like 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...; Region: YjgF_YER057c_UK114_like_2; cd06150 634459005559 homotrimer interaction site [polypeptide binding]; other site 634459005560 putative active site [active] 634459005561 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; cl17432 634459005562 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 634459005563 aspartate aminotransferase; Provisional; Region: PRK05764 634459005564 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 634459005565 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459005566 homodimer interface [polypeptide binding]; other site 634459005567 catalytic residue [active] 634459005568 aspartate aminotransferase; Provisional; Region: PRK05764 634459005569 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 634459005570 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459005571 homodimer interface [polypeptide binding]; other site 634459005572 catalytic residue [active] 634459005573 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 634459005574 active site 634459005575 HIGH motif; other site 634459005576 nucleotide binding site [chemical binding]; other site 634459005577 active site 634459005578 KMSKS motif; other site 634459005579 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 634459005580 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 634459005581 active site 634459005582 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 634459005583 metal-binding site [ion binding] 634459005584 hopanoid C-3 methylase HpnR; Region: HpnR_B12_rSAM; TIGR04367 634459005585 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 634459005586 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 634459005587 FeS/SAM binding site; other site 634459005588 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 634459005589 active site 634459005590 multimer interface [polypeptide binding]; other site 634459005591 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 634459005592 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459005593 Walker A/P-loop; other site 634459005594 ATP binding site [chemical binding]; other site 634459005595 Q-loop/lid; other site 634459005596 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634459005597 ABC transporter; Region: ABC_tran_2; pfam12848 634459005598 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634459005599 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 634459005600 Domain of unknown function DUF20; Region: UPF0118; pfam01594 634459005601 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634459005602 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 634459005603 active site 634459005604 phosphorylation site [posttranslational modification] 634459005605 intermolecular recognition site; other site 634459005606 dimerization interface [polypeptide binding]; other site 634459005607 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 634459005608 DNA binding site [nucleotide binding] 634459005609 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634459005610 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 634459005611 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; cl00080 634459005612 dimer interface [polypeptide binding]; other site 634459005613 phosphorylation site [posttranslational modification] 634459005614 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 634459005615 ATP binding site [chemical binding]; other site 634459005616 Mg2+ binding site [ion binding]; other site 634459005617 G-X-G motif; other site 634459005618 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 634459005619 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 634459005620 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 634459005621 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 634459005622 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 634459005623 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 634459005624 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 634459005625 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 634459005626 active site 634459005627 dimer interface [polypeptide binding]; other site 634459005628 motif 1; other site 634459005629 motif 2; other site 634459005630 motif 3; other site 634459005631 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 634459005632 anticodon binding site; other site 634459005633 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 634459005634 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 634459005635 putative active site [active] 634459005636 TPR repeat; Region: TPR_11; pfam13414 634459005637 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 634459005638 binding surface 634459005639 TPR motif; other site 634459005640 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634459005641 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 634459005642 putative ADP-binding pocket [chemical binding]; other site 634459005643 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 634459005644 ATP-NAD kinase; Region: NAD_kinase; pfam01513 634459005645 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 634459005646 RNA/DNA hybrid binding site [nucleotide binding]; other site 634459005647 active site 634459005648 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 634459005649 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 634459005650 putative active site [active] 634459005651 putative substrate binding site [chemical binding]; other site 634459005652 ATP binding site [chemical binding]; other site 634459005653 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 634459005654 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 634459005655 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 634459005656 ABC1 family; Region: ABC1; cl17513 634459005657 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 634459005658 active site 634459005659 substrate binding site [chemical binding]; other site 634459005660 ATP binding site [chemical binding]; other site 634459005661 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 634459005662 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 634459005663 active site 634459005664 Zn binding site [ion binding]; other site 634459005665 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 634459005666 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 634459005667 active site 634459005668 dimer interface [polypeptide binding]; other site 634459005669 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 634459005670 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 634459005671 active site 634459005672 FMN binding site [chemical binding]; other site 634459005673 substrate binding site [chemical binding]; other site 634459005674 3Fe-4S cluster binding site [ion binding]; other site 634459005675 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 634459005676 domain interface; other site 634459005677 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 634459005678 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634459005679 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634459005680 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 634459005681 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 634459005682 putative NAD(P) binding site [chemical binding]; other site 634459005683 active site 634459005684 EamA-like transporter family; Region: EamA; pfam00892 634459005685 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 634459005686 EamA-like transporter family; Region: EamA; pfam00892 634459005687 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 634459005688 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 634459005689 active site 634459005690 metal binding site [ion binding]; metal-binding site 634459005691 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 634459005692 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 634459005693 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 634459005694 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 634459005695 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 634459005696 histidinol dehydrogenase; Region: hisD; TIGR00069 634459005697 NAD binding site [chemical binding]; other site 634459005698 dimerization interface [polypeptide binding]; other site 634459005699 product binding site; other site 634459005700 substrate binding site [chemical binding]; other site 634459005701 zinc binding site [ion binding]; other site 634459005702 catalytic residues [active] 634459005703 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 634459005704 rRNA binding site [nucleotide binding]; other site 634459005705 predicted 30S ribosome binding site; other site 634459005706 Maf-like protein; Region: Maf; pfam02545 634459005707 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 634459005708 active site 634459005709 dimer interface [polypeptide binding]; other site 634459005710 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 634459005711 RNA binding site [nucleotide binding]; other site 634459005712 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 634459005713 Domain of unknown function (DUF329); Region: DUF329; pfam03884 634459005714 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 634459005715 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 634459005716 catalytic residue [active] 634459005717 protease 2; Provisional; Region: PRK10115 634459005718 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 634459005719 Phage capsid family; Region: Phage_capsid; pfam05065 634459005720 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 634459005721 Phage-related protein [Function unknown]; Region: COG4695 634459005722 Phage portal protein; Region: Phage_portal; pfam04860 634459005723 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 634459005724 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 634459005725 active site 634459005726 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 634459005727 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 634459005728 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 634459005729 active site 634459005730 DNA binding site [nucleotide binding] 634459005731 Int/Topo IB signature motif; other site 634459005732 Protein of unknown function (DUF2283); Region: DUF2283; pfam10049 634459005733 Prophage antirepressor [Transcription]; Region: COG3617 634459005734 BRO family, N-terminal domain; Region: Bro-N; smart01040 634459005735 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 634459005736 Predicted transcriptional regulator [Transcription]; Region: COG2932 634459005737 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 634459005738 Catalytic site [active] 634459005739 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 634459005740 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 634459005741 active site 634459005742 catalytic site [active] 634459005743 substrate binding site [chemical binding]; other site 634459005744 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 634459005745 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 634459005746 non-specific DNA binding site [nucleotide binding]; other site 634459005747 salt bridge; other site 634459005748 sequence-specific DNA binding site [nucleotide binding]; other site 634459005749 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 634459005750 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 634459005751 active site 634459005752 DNA binding site [nucleotide binding] 634459005753 Int/Topo IB signature motif; other site 634459005754 Cytochrome c; Region: Cytochrom_C; pfam00034 634459005755 3beta17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 3beta-17beta-HSD_like_SDR_c; cd05341 634459005756 homotetramer interface [polypeptide binding]; other site 634459005757 short chain dehydrogenase; Validated; Region: PRK07069 634459005758 NAD binding site [chemical binding]; other site 634459005759 homodimer interface [polypeptide binding]; other site 634459005760 active site 634459005761 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 634459005762 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634459005763 NAD binding site [chemical binding]; other site 634459005764 catalytic residues [active] 634459005765 D-lactate dehydrogenase; Provisional; Region: PRK11183 634459005766 FAD binding domain; Region: FAD_binding_4; pfam01565 634459005767 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 634459005768 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 634459005769 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 634459005770 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 634459005771 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 634459005772 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 634459005773 Uncharacterized conserved protein [Function unknown]; Region: COG2308 634459005774 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 634459005775 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 634459005776 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 634459005777 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 634459005778 dimerization interface [polypeptide binding]; other site 634459005779 active site 634459005780 quinolinate synthetase; Provisional; Region: PRK09375 634459005781 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 634459005782 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634459005783 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634459005784 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 634459005785 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634459005786 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634459005787 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 634459005788 NAD(P) binding site [chemical binding]; other site 634459005789 catalytic residues [active] 634459005790 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 634459005791 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634459005792 putative substrate translocation pore; other site 634459005793 Domain of unknown function (DUF336); Region: DUF336; pfam03928 634459005794 Predicted flavoprotein [General function prediction only]; Region: COG0431 634459005795 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 634459005796 Pirin-related protein [General function prediction only]; Region: COG1741 634459005797 Pirin; Region: Pirin; pfam02678 634459005798 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 634459005799 LysR family transcriptional regulator; Provisional; Region: PRK14997 634459005800 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459005801 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 634459005802 putative effector binding pocket; other site 634459005803 putative dimerization interface [polypeptide binding]; other site 634459005804 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634459005805 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 634459005806 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634459005807 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 634459005808 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 634459005809 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634459005810 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 634459005811 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 634459005812 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 634459005813 D-galactonate transporter; Region: 2A0114; TIGR00893 634459005814 putative substrate translocation pore; other site 634459005815 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 634459005816 EamA-like transporter family; Region: EamA; cl17759 634459005817 EamA-like transporter family; Region: EamA; pfam00892 634459005818 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 634459005819 putative active site [active] 634459005820 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 634459005821 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 634459005822 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 634459005823 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 634459005824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634459005825 NAD(P) binding site [chemical binding]; other site 634459005826 active site 634459005827 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 634459005828 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 634459005829 carboxyltransferase (CT) interaction site; other site 634459005830 biotinylation site [posttranslational modification]; other site 634459005831 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 634459005832 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 634459005833 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 634459005834 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 634459005835 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 634459005836 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 634459005837 carboxyltransferase (CT) interaction site; other site 634459005838 biotinylation site [posttranslational modification]; other site 634459005839 aspartate aminotransferase; Provisional; Region: PRK05764 634459005840 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 634459005841 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459005842 homodimer interface [polypeptide binding]; other site 634459005843 catalytic residue [active] 634459005844 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 634459005845 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459005846 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 634459005847 putative dimerization interface [polypeptide binding]; other site 634459005848 amidase; Provisional; Region: PRK07056 634459005849 Amidase; Region: Amidase; cl11426 634459005850 short chain dehydrogenase; Provisional; Region: PRK09291 634459005851 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634459005852 NAD(P) binding site [chemical binding]; other site 634459005853 active site 634459005854 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 634459005855 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 634459005856 active site 634459005857 catalytic site [active] 634459005858 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 634459005859 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 634459005860 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 634459005861 catalytic site [active] 634459005862 active site 634459005863 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 634459005864 glycogen branching enzyme; Provisional; Region: PRK05402 634459005865 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 634459005866 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 634459005867 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 634459005868 active site 634459005869 catalytic site [active] 634459005870 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 634459005871 glycogen synthase; Provisional; Region: glgA; PRK00654 634459005872 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 634459005873 ADP-binding pocket [chemical binding]; other site 634459005874 homodimer interface [polypeptide binding]; other site 634459005875 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 634459005876 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 634459005877 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 634459005878 active site 634459005879 catalytic site [active] 634459005880 short chain dehydrogenase; Provisional; Region: PRK06701 634459005881 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634459005882 NAD(P) binding site [chemical binding]; other site 634459005883 active site 634459005884 thiamine pyrophosphate protein; Provisional; Region: PRK08273 634459005885 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 634459005886 PYR/PP interface [polypeptide binding]; other site 634459005887 dimer interface [polypeptide binding]; other site 634459005888 tetramer interface [polypeptide binding]; other site 634459005889 TPP binding site [chemical binding]; other site 634459005890 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634459005891 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 634459005892 TPP-binding site [chemical binding]; other site 634459005893 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 634459005894 Transposase; Region: HTH_Tnp_1; pfam01527 634459005895 HTH-like domain; Region: HTH_21; pfam13276 634459005896 Integrase core domain; Region: rve; pfam00665 634459005897 Integrase core domain; Region: rve_3; pfam13683 634459005898 FAD binding domain; Region: FAD_binding_3; pfam01494 634459005899 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 634459005900 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 634459005901 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 634459005902 Cu(I) binding site [ion binding]; other site 634459005903 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634459005904 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 634459005905 N-terminal plug; other site 634459005906 ligand-binding site [chemical binding]; other site 634459005907 Hint domain; Region: Hint_2; pfam13403 634459005908 HTH-like domain; Region: HTH_21; pfam13276 634459005909 Integrase core domain; Region: rve; pfam00665 634459005910 Integrase core domain; Region: rve_3; pfam13683 634459005911 Transposase; Region: HTH_Tnp_1; pfam01527 634459005912 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_31; cd04690 634459005913 nudix motif; other site 634459005914 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459005915 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 634459005916 dimerization interface [polypeptide binding]; other site 634459005917 Fusaric acid resistance protein family; Region: FUSC; pfam04632 634459005918 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634459005919 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 634459005920 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 634459005921 Zinc-finger domain; Region: zf-CHCC; pfam10276 634459005922 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 634459005923 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 634459005924 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 634459005925 DsbD alpha interface [polypeptide binding]; other site 634459005926 catalytic residues [active] 634459005927 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 634459005928 seryl-tRNA synthetase; Provisional; Region: PRK05431 634459005929 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 634459005930 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 634459005931 dimer interface [polypeptide binding]; other site 634459005932 active site 634459005933 motif 1; other site 634459005934 motif 2; other site 634459005935 motif 3; other site 634459005936 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 634459005937 sec-independent translocase; Provisional; Region: tatB; PRK00182 634459005938 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 634459005939 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 634459005940 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 634459005941 Sporulation related domain; Region: SPOR; pfam05036 634459005942 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 634459005943 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 634459005944 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634459005945 active site 634459005946 HIGH motif; other site 634459005947 nucleotide binding site [chemical binding]; other site 634459005948 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 634459005949 KMSK motif region; other site 634459005950 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 634459005951 tRNA binding surface [nucleotide binding]; other site 634459005952 anticodon binding site; other site 634459005953 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 634459005954 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 634459005955 Zn2+ binding site [ion binding]; other site 634459005956 Mg2+ binding site [ion binding]; other site 634459005957 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 634459005958 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 634459005959 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 634459005960 putative catalytic site [active] 634459005961 putative phosphate binding site [ion binding]; other site 634459005962 active site 634459005963 metal binding site A [ion binding]; metal-binding site 634459005964 DNA binding site [nucleotide binding] 634459005965 putative AP binding site [nucleotide binding]; other site 634459005966 putative metal binding site B [ion binding]; other site 634459005967 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 634459005968 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 634459005969 active site 634459005970 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 634459005971 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 634459005972 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 634459005973 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 634459005974 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 634459005975 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 634459005976 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 634459005977 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 634459005978 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 634459005979 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 634459005980 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 634459005981 FeS/SAM binding site; other site 634459005982 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 634459005983 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 634459005984 dinuclear metal binding motif [ion binding]; other site 634459005985 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 634459005986 Clp protease; Region: CLP_protease; pfam00574 634459005987 oligomer interface [polypeptide binding]; other site 634459005988 active site residues [active] 634459005989 aminotransferase; Validated; Region: PRK09148 634459005990 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 634459005991 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459005992 homodimer interface [polypeptide binding]; other site 634459005993 catalytic residue [active] 634459005994 homoserine dehydrogenase; Provisional; Region: PRK06349 634459005995 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 634459005996 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 634459005997 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 634459005998 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 634459005999 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 634459006000 putative active site [active] 634459006001 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 634459006002 DHH family; Region: DHH; pfam01368 634459006003 DHHA1 domain; Region: DHHA1; pfam02272 634459006004 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 634459006005 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634459006006 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 634459006007 DNA binding residues [nucleotide binding] 634459006008 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 634459006009 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 634459006010 RNA binding surface [nucleotide binding]; other site 634459006011 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 634459006012 active site 634459006013 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 634459006014 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 634459006015 ABC-ATPase subunit interface; other site 634459006016 dimer interface [polypeptide binding]; other site 634459006017 putative PBP binding regions; other site 634459006018 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 634459006019 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 634459006020 Walker A/P-loop; other site 634459006021 ATP binding site [chemical binding]; other site 634459006022 Q-loop/lid; other site 634459006023 ABC transporter signature motif; other site 634459006024 Walker B; other site 634459006025 D-loop; other site 634459006026 H-loop/switch region; other site 634459006027 Uncharacterized conserved protein [Function unknown]; Region: COG0397 634459006028 hypothetical protein; Validated; Region: PRK00029 634459006029 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 634459006030 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 634459006031 homodimer interface [polypeptide binding]; other site 634459006032 substrate-cofactor binding pocket; other site 634459006033 catalytic residue [active] 634459006034 DNA polymerase I; Provisional; Region: PRK05755 634459006035 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 634459006036 active site 634459006037 metal binding site 1 [ion binding]; metal-binding site 634459006038 putative 5' ssDNA interaction site; other site 634459006039 metal binding site 3; metal-binding site 634459006040 metal binding site 2 [ion binding]; metal-binding site 634459006041 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 634459006042 putative DNA binding site [nucleotide binding]; other site 634459006043 putative metal binding site [ion binding]; other site 634459006044 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 634459006045 active site 634459006046 catalytic site [active] 634459006047 substrate binding site [chemical binding]; other site 634459006048 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 634459006049 active site 634459006050 DNA binding site [nucleotide binding] 634459006051 catalytic site [active] 634459006052 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 634459006053 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 634459006054 Cu(I) binding site [ion binding]; other site 634459006055 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 634459006056 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 634459006057 putative acyl-acceptor binding pocket; other site 634459006058 proline/glycine betaine transporter; Provisional; Region: PRK10642 634459006059 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 634459006060 putative substrate translocation pore; other site 634459006061 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459006062 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459006063 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 634459006064 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 634459006065 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 634459006066 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 634459006067 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 634459006068 L-asparagine permease; Provisional; Region: PRK15049 634459006069 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 634459006070 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 634459006071 Trp docking motif [polypeptide binding]; other site 634459006072 putative active site [active] 634459006073 Hint domain; Region: Hint_2; pfam13403 634459006074 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 634459006075 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 634459006076 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 634459006077 inhibitor-cofactor binding pocket; inhibition site 634459006078 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459006079 catalytic residue [active] 634459006080 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 634459006081 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 634459006082 DNA-binding site [nucleotide binding]; DNA binding site 634459006083 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 634459006084 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459006085 homodimer interface [polypeptide binding]; other site 634459006086 catalytic residue [active] 634459006087 allantoate amidohydrolase; Reviewed; Region: PRK09290 634459006088 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 634459006089 active site 634459006090 metal binding site [ion binding]; metal-binding site 634459006091 dimer interface [polypeptide binding]; other site 634459006092 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 634459006093 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 634459006094 homodimer interface [polypeptide binding]; other site 634459006095 active site 634459006096 FMN binding site [chemical binding]; other site 634459006097 substrate binding site [chemical binding]; other site 634459006098 4Fe-4S binding domain; Region: Fer4; pfam00037 634459006099 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 634459006100 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 634459006101 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 634459006102 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 634459006103 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634459006104 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 634459006105 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 634459006106 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 634459006107 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 634459006108 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634459006109 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634459006110 Transposase; Region: HTH_Tnp_1; pfam01527 634459006111 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634459006112 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 634459006113 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 634459006114 phenylhydantoinase; Validated; Region: PRK08323 634459006115 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 634459006116 tetramer interface [polypeptide binding]; other site 634459006117 active site 634459006118 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 634459006119 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 634459006120 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 634459006121 putative substrate binding site [chemical binding]; other site 634459006122 Na binding site [ion binding]; other site 634459006123 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634459006124 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 634459006125 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 634459006126 active site 634459006127 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 634459006128 active site 634459006129 dimer interface [polypeptide binding]; other site 634459006130 Preprotein translocase subunit SecB; Region: SecB; pfam02556 634459006131 SecA binding site; other site 634459006132 Preprotein binding site; other site 634459006133 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 634459006134 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 634459006135 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 634459006136 active site 634459006137 hydrophilic channel; other site 634459006138 catalytic residues [active] 634459006139 active site lid [active] 634459006140 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 634459006141 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 634459006142 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 634459006143 Na binding site [ion binding]; other site 634459006144 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 634459006145 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 634459006146 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 634459006147 Beta-lactamase; Region: Beta-lactamase; pfam00144 634459006148 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 634459006149 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 634459006150 non-specific DNA binding site [nucleotide binding]; other site 634459006151 salt bridge; other site 634459006152 sequence-specific DNA binding site [nucleotide binding]; other site 634459006153 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 634459006154 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 634459006155 heme-binding site [chemical binding]; other site 634459006156 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 634459006157 FAD binding pocket [chemical binding]; other site 634459006158 FAD binding motif [chemical binding]; other site 634459006159 phosphate binding motif [ion binding]; other site 634459006160 beta-alpha-beta structure motif; other site 634459006161 NAD binding pocket [chemical binding]; other site 634459006162 Heme binding pocket [chemical binding]; other site 634459006163 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 634459006164 dimer interface [polypeptide binding]; other site 634459006165 conserved gate region; other site 634459006166 putative PBP binding loops; other site 634459006167 ABC-ATPase subunit interface; other site 634459006168 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 634459006169 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 634459006170 Walker A/P-loop; other site 634459006171 ATP binding site [chemical binding]; other site 634459006172 Q-loop/lid; other site 634459006173 ABC transporter signature motif; other site 634459006174 Walker B; other site 634459006175 D-loop; other site 634459006176 H-loop/switch region; other site 634459006177 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 634459006178 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 634459006179 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 634459006180 FAD binding domain; Region: FAD_binding_4; pfam01565 634459006181 siroheme synthase; Provisional; Region: cysG; PRK10637 634459006182 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 634459006183 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 634459006184 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 634459006185 active site 634459006186 SAM binding site [chemical binding]; other site 634459006187 homodimer interface [polypeptide binding]; other site 634459006188 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 634459006189 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 634459006190 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 634459006191 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 634459006192 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 634459006193 Amidase; Region: Amidase; cl11426 634459006194 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 634459006195 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 634459006196 intersubunit interface [polypeptide binding]; other site 634459006197 active site 634459006198 Zn2+ binding site [ion binding]; other site 634459006199 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 634459006200 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 634459006201 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 634459006202 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 634459006203 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 634459006204 FMN-binding pocket [chemical binding]; other site 634459006205 flavin binding motif; other site 634459006206 phosphate binding motif [ion binding]; other site 634459006207 beta-alpha-beta structure motif; other site 634459006208 NAD binding pocket [chemical binding]; other site 634459006209 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 634459006210 catalytic loop [active] 634459006211 iron binding site [ion binding]; other site 634459006212 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 634459006213 classical (c) SDRs; Region: SDR_c; cd05233 634459006214 NAD(P) binding site [chemical binding]; other site 634459006215 active site 634459006216 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 634459006217 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 634459006218 [2Fe-2S] cluster binding site [ion binding]; other site 634459006219 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 634459006220 putative alpha subunit interface [polypeptide binding]; other site 634459006221 putative active site [active] 634459006222 putative substrate binding site [chemical binding]; other site 634459006223 Fe binding site [ion binding]; other site 634459006224 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 634459006225 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 634459006226 active site 634459006227 Carbohydrate-selective porin, OprB family; Region: OprB; cl17816 634459006228 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 634459006229 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634459006230 NAD(P) binding site [chemical binding]; other site 634459006231 catalytic residues [active] 634459006232 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 634459006233 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 634459006234 Trp docking motif [polypeptide binding]; other site 634459006235 cytochrome domain interface [polypeptide binding]; other site 634459006236 active site 634459006237 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 634459006238 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 634459006239 putative substrate translocation pore; other site 634459006240 SnoaL-like domain; Region: SnoaL_4; pfam13577 634459006241 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634459006242 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459006243 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 634459006244 putative substrate binding pocket [chemical binding]; other site 634459006245 dimerization interface [polypeptide binding]; other site 634459006246 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 634459006247 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 634459006248 dimer interface [polypeptide binding]; other site 634459006249 conserved gate region; other site 634459006250 putative PBP binding loops; other site 634459006251 ABC-ATPase subunit interface; other site 634459006252 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 634459006253 ABC-ATPase subunit interface; other site 634459006254 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459006255 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459006256 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634459006257 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 634459006258 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 634459006259 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 634459006260 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 634459006261 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459006262 Walker A/P-loop; other site 634459006263 ATP binding site [chemical binding]; other site 634459006264 Q-loop/lid; other site 634459006265 ABC transporter signature motif; other site 634459006266 Walker B; other site 634459006267 D-loop; other site 634459006268 H-loop/switch region; other site 634459006269 TOBE domain; Region: TOBE_2; pfam08402 634459006270 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 634459006271 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 634459006272 tetrameric interface [polypeptide binding]; other site 634459006273 NAD binding site [chemical binding]; other site 634459006274 catalytic residues [active] 634459006275 substrate binding site [chemical binding]; other site 634459006276 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 634459006277 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 634459006278 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 634459006279 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 634459006280 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 634459006281 Sel1-like repeats; Region: SEL1; smart00671 634459006282 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634459006283 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 634459006284 N-terminal plug; other site 634459006285 ligand-binding site [chemical binding]; other site 634459006286 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 634459006287 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634459006288 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 634459006289 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 634459006290 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634459006291 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459006292 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634459006293 LysR substrate binding domain; Region: LysR_substrate; pfam03466 634459006294 dimerization interface [polypeptide binding]; other site 634459006295 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 634459006296 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 634459006297 [2Fe-2S] cluster binding site [ion binding]; other site 634459006298 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 634459006299 hydrophobic ligand binding site; other site 634459006300 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 634459006301 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 634459006302 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634459006303 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 634459006304 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 634459006305 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 634459006306 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 634459006307 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634459006308 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 634459006309 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634459006310 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 634459006311 tetramerization interface [polypeptide binding]; other site 634459006312 NAD(P) binding site [chemical binding]; other site 634459006313 catalytic residues [active] 634459006314 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 634459006315 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 634459006316 putative substrate translocation pore; other site 634459006317 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 634459006318 homotrimer interface [polypeptide binding]; other site 634459006319 Walker A motif; other site 634459006320 GTP binding site [chemical binding]; other site 634459006321 Walker B motif; other site 634459006322 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 634459006323 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 634459006324 putative dimer interface [polypeptide binding]; other site 634459006325 active site pocket [active] 634459006326 putative cataytic base [active] 634459006327 cobalamin synthase; Reviewed; Region: cobS; PRK00235 634459006328 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 634459006329 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 634459006330 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459006331 homodimer interface [polypeptide binding]; other site 634459006332 catalytic residue [active] 634459006333 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 634459006334 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 634459006335 putative FMN binding site [chemical binding]; other site 634459006336 cobyric acid synthase; Provisional; Region: PRK00784 634459006337 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 634459006338 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 634459006339 catalytic triad [active] 634459006340 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 634459006341 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 634459006342 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 634459006343 homodimer interface [polypeptide binding]; other site 634459006344 Walker A motif; other site 634459006345 ATP binding site [chemical binding]; other site 634459006346 hydroxycobalamin binding site [chemical binding]; other site 634459006347 Walker B motif; other site 634459006348 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 634459006349 catalytic core [active] 634459006350 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 634459006351 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 634459006352 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 634459006353 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 634459006354 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 634459006355 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 634459006356 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 634459006357 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 634459006358 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 634459006359 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 634459006360 dimer interface [polypeptide binding]; other site 634459006361 [2Fe-2S] cluster binding site [ion binding]; other site 634459006362 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 634459006363 MarR family; Region: MarR; pfam01047 634459006364 Fusaric acid resistance protein family; Region: FUSC; pfam04632 634459006365 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634459006366 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 634459006367 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 634459006368 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 634459006369 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 634459006370 substrate binding site [chemical binding]; other site 634459006371 oxyanion hole (OAH) forming residues; other site 634459006372 trimer interface [polypeptide binding]; other site 634459006373 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 634459006374 Flavin Reductases; Region: FlaRed; cl00801 634459006375 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 634459006376 dimer interface [polypeptide binding]; other site 634459006377 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 634459006378 putative PBP binding regions; other site 634459006379 ABC-ATPase subunit interface; other site 634459006380 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 634459006381 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459006382 Walker A/P-loop; other site 634459006383 ATP binding site [chemical binding]; other site 634459006384 Q-loop/lid; other site 634459006385 ABC transporter signature motif; other site 634459006386 Walker B; other site 634459006387 D-loop; other site 634459006388 H-loop/switch region; other site 634459006389 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 634459006390 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 634459006391 intersubunit interface [polypeptide binding]; other site 634459006392 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 634459006393 metal binding site 2 [ion binding]; metal-binding site 634459006394 putative DNA binding helix; other site 634459006395 metal binding site 1 [ion binding]; metal-binding site 634459006396 dimer interface [polypeptide binding]; other site 634459006397 structural Zn2+ binding site [ion binding]; other site 634459006398 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 634459006399 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 634459006400 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 634459006401 putative deacylase active site [active] 634459006402 Uncharacterized protein conserved in bacteria (DUF2272); Region: DUF2272; pfam10030 634459006403 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 634459006404 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 634459006405 dimer interface [polypeptide binding]; other site 634459006406 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459006407 catalytic residue [active] 634459006408 GMP synthase; Reviewed; Region: guaA; PRK00074 634459006409 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 634459006410 AMP/PPi binding site [chemical binding]; other site 634459006411 candidate oxyanion hole; other site 634459006412 catalytic triad [active] 634459006413 potential glutamine specificity residues [chemical binding]; other site 634459006414 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 634459006415 ATP Binding subdomain [chemical binding]; other site 634459006416 Ligand Binding sites [chemical binding]; other site 634459006417 Dimerization subdomain; other site 634459006418 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634459006419 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 634459006420 catalytic residues [active] 634459006421 catalytic nucleophile [active] 634459006422 Presynaptic Site I dimer interface [polypeptide binding]; other site 634459006423 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634459006424 Synaptic Flat tetramer interface [polypeptide binding]; other site 634459006425 Synaptic Site I dimer interface [polypeptide binding]; other site 634459006426 DNA binding site [nucleotide binding] 634459006427 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 634459006428 DNA-binding interface [nucleotide binding]; DNA binding site 634459006429 Domain of unknown function (DUF927); Region: DUF927; pfam06048 634459006430 Toprim domain; Region: Toprim_3; pfam13362 634459006431 Helix-turn-helix domain; Region: HTH_17; pfam12728 634459006432 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634459006433 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459006434 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459006435 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 634459006436 salt bridge; other site 634459006437 non-specific DNA binding site [nucleotide binding]; other site 634459006438 sequence-specific DNA binding site [nucleotide binding]; other site 634459006439 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459006440 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459006441 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 634459006442 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 634459006443 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 634459006444 DNA binding residues [nucleotide binding] 634459006445 HNH endonuclease; Region: HNH_2; pfam13391 634459006446 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 634459006447 active site 634459006448 DNA binding site [nucleotide binding] 634459006449 Int/Topo IB signature motif; other site 634459006450 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 634459006451 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 634459006452 putative substrate translocation pore; other site 634459006453 Phage shock protein B; Region: PspB; cl05946 634459006454 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 634459006455 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 634459006456 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 634459006457 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634459006458 catalytic residue [active] 634459006459 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 634459006460 L-lactate permease; Region: Lactate_perm; cl00701 634459006461 Uncharacterized conserved protein [Function unknown]; Region: COG1359 634459006462 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 634459006463 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 634459006464 NADP binding site [chemical binding]; other site 634459006465 homopentamer interface [polypeptide binding]; other site 634459006466 substrate binding site [chemical binding]; other site 634459006467 active site 634459006468 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 634459006469 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 634459006470 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 634459006471 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 634459006472 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 634459006473 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 634459006474 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634459006475 catalytic residue [active] 634459006476 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 634459006477 Sporulation related domain; Region: SPOR; pfam05036 634459006478 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 634459006479 ABC-2 type transporter; Region: ABC2_membrane; cl17235 634459006480 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 634459006481 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 634459006482 Walker A/P-loop; other site 634459006483 ATP binding site [chemical binding]; other site 634459006484 Q-loop/lid; other site 634459006485 ABC transporter signature motif; other site 634459006486 Walker B; other site 634459006487 D-loop; other site 634459006488 H-loop/switch region; other site 634459006489 Uncharacterized conserved protein [Function unknown]; Region: COG1742 634459006490 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 634459006491 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 634459006492 Cl binding site [ion binding]; other site 634459006493 oligomer interface [polypeptide binding]; other site 634459006494 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 634459006495 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 634459006496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459006497 homodimer interface [polypeptide binding]; other site 634459006498 catalytic residue [active] 634459006499 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 634459006500 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 634459006501 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 634459006502 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 634459006503 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 634459006504 TPP-binding site [chemical binding]; other site 634459006505 dimer interface [polypeptide binding]; other site 634459006506 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 634459006507 PYR/PP interface [polypeptide binding]; other site 634459006508 dimer interface [polypeptide binding]; other site 634459006509 TPP binding site [chemical binding]; other site 634459006510 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634459006511 bifunctional transaldolase/phosoglucose isomerase; Validated; Region: PRK09533 634459006512 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 634459006513 putative active site [active] 634459006514 catalytic residue [active] 634459006515 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 634459006516 SIS_TAL_PGI: Transaldolase (TAL)/ Phosphoglucose isomerase (PGI). This group represents the SIS (Sugar ISomerase) PGI domain, of a multifunctional protein (TAL-PGI ) having both TAL and PGI activities. TAL_PGI contains an N-terminal TAL domain and a...; Region: SIS_TAL_PGI; cd05798 634459006517 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 634459006518 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 634459006519 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 634459006520 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 634459006521 active site 634459006522 motif I; other site 634459006523 motif II; other site 634459006524 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 634459006525 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 634459006526 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 634459006527 putative active site [active] 634459006528 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 634459006529 tetramer (dimer of dimers) interface [polypeptide binding]; other site 634459006530 active site 634459006531 dimer interface [polypeptide binding]; other site 634459006532 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 634459006533 AAA domain; Region: AAA_33; pfam13671 634459006534 ATP-binding site [chemical binding]; other site 634459006535 Gluconate-6-phosphate binding site [chemical binding]; other site 634459006536 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 634459006537 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 634459006538 intersubunit interface [polypeptide binding]; other site 634459006539 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 634459006540 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 634459006541 Cl- selectivity filter; other site 634459006542 Cl- binding residues [ion binding]; other site 634459006543 pore gating glutamate residue; other site 634459006544 dimer interface [polypeptide binding]; other site 634459006545 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 634459006546 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 634459006547 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 634459006548 NAD(P) binding site [chemical binding]; other site 634459006549 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 634459006550 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 634459006551 catalytic residue [active] 634459006552 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 634459006553 potassium uptake protein; Region: kup; TIGR00794 634459006554 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 634459006555 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 634459006556 FeS/SAM binding site; other site 634459006557 HemN C-terminal domain; Region: HemN_C; pfam06969 634459006558 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 634459006559 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 634459006560 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 634459006561 Walker A/P-loop; other site 634459006562 ATP binding site [chemical binding]; other site 634459006563 Q-loop/lid; other site 634459006564 ABC transporter signature motif; other site 634459006565 Walker B; other site 634459006566 D-loop; other site 634459006567 H-loop/switch region; other site 634459006568 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 634459006569 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 634459006570 Walker A/P-loop; other site 634459006571 ATP binding site [chemical binding]; other site 634459006572 Q-loop/lid; other site 634459006573 ABC transporter signature motif; other site 634459006574 Walker B; other site 634459006575 D-loop; other site 634459006576 H-loop/switch region; other site 634459006577 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 634459006578 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 634459006579 TM-ABC transporter signature motif; other site 634459006580 HEAT repeats; Region: HEAT_2; pfam13646 634459006581 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 634459006582 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 634459006583 TM-ABC transporter signature motif; other site 634459006584 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 634459006585 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 634459006586 putative ligand binding site [chemical binding]; other site 634459006587 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 634459006588 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634459006589 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 634459006590 dimer interface [polypeptide binding]; other site 634459006591 phosphorylation site [posttranslational modification] 634459006592 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 634459006593 ATP binding site [chemical binding]; other site 634459006594 Mg2+ binding site [ion binding]; other site 634459006595 G-X-G motif; other site 634459006596 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 634459006597 Response regulator receiver domain; Region: Response_reg; pfam00072 634459006598 active site 634459006599 phosphorylation site [posttranslational modification] 634459006600 intermolecular recognition site; other site 634459006601 dimerization interface [polypeptide binding]; other site 634459006602 Response regulator receiver domain; Region: Response_reg; pfam00072 634459006603 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 634459006604 active site 634459006605 phosphorylation site [posttranslational modification] 634459006606 intermolecular recognition site; other site 634459006607 dimerization interface [polypeptide binding]; other site 634459006608 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 634459006609 DNA binding residues [nucleotide binding] 634459006610 HTH-like domain; Region: HTH_21; pfam13276 634459006611 Integrase core domain; Region: rve; pfam00665 634459006612 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459006613 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 634459006614 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 634459006615 UreF; Region: UreF; pfam01730 634459006616 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 634459006617 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 634459006618 dimer interface [polypeptide binding]; other site 634459006619 catalytic residues [active] 634459006620 urease subunit alpha; Reviewed; Region: ureC; PRK13207 634459006621 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 634459006622 subunit interactions [polypeptide binding]; other site 634459006623 active site 634459006624 flap region; other site 634459006625 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 634459006626 alpha-beta subunit interface [polypeptide binding]; other site 634459006627 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 634459006628 alpha-gamma subunit interface [polypeptide binding]; other site 634459006629 beta-gamma subunit interface [polypeptide binding]; other site 634459006630 UreD urease accessory protein; Region: UreD; pfam01774 634459006631 High-affinity nickel-transport protein; Region: NicO; cl00964 634459006632 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 634459006633 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 634459006634 dimer interface [polypeptide binding]; other site 634459006635 PYR/PP interface [polypeptide binding]; other site 634459006636 TPP binding site [chemical binding]; other site 634459006637 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634459006638 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 634459006639 TPP-binding site [chemical binding]; other site 634459006640 dimer interface [polypeptide binding]; other site 634459006641 Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]; Region: phoE; COG0406 634459006642 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 634459006643 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 634459006644 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 634459006645 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 634459006646 heme binding site [chemical binding]; other site 634459006647 ferroxidase pore; other site 634459006648 ferroxidase diiron center [ion binding]; other site 634459006649 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 634459006650 ArsC family; Region: ArsC; pfam03960 634459006651 putative catalytic residues [active] 634459006652 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 634459006653 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 634459006654 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 634459006655 dimerization interface [polypeptide binding]; other site 634459006656 putative DNA binding site [nucleotide binding]; other site 634459006657 putative Zn2+ binding site [ion binding]; other site 634459006658 peroxiredoxin; Provisional; Region: PRK13189 634459006659 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 634459006660 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 634459006661 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 634459006662 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 634459006663 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 634459006664 Sulfate transporter family; Region: Sulfate_transp; pfam00916 634459006665 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 634459006666 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 634459006667 catalytic residues [active] 634459006668 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459006669 Pirin-related protein [General function prediction only]; Region: COG1741 634459006670 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 634459006671 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 634459006672 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634459006673 HlyD family secretion protein; Region: HlyD_3; pfam13437 634459006674 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 634459006675 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 634459006676 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634459006677 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459006678 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 634459006679 putative dimerization interface [polypeptide binding]; other site 634459006680 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459006681 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634459006682 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 634459006683 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 634459006684 putative substrate translocation pore; other site 634459006685 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459006686 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459006687 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 634459006688 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 634459006689 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 634459006690 Isochorismatase family; Region: Isochorismatase; pfam00857 634459006691 catalytic triad [active] 634459006692 conserved cis-peptide bond; other site 634459006693 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 634459006694 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634459006695 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 634459006696 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634459006697 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 634459006698 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634459006699 Cytochrome c; Region: Cytochrom_C; pfam00034 634459006700 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634459006701 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634459006702 Cytochrome c; Region: Cytochrom_C; pfam00034 634459006703 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 634459006704 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 634459006705 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 634459006706 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 634459006707 Transcriptional regulators [Transcription]; Region: MarR; COG1846 634459006708 MarR family; Region: MarR_2; pfam12802 634459006709 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459006710 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 634459006711 active site 634459006712 catalytic triad [active] 634459006713 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 634459006714 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 634459006715 Walker A motif; other site 634459006716 ATP binding site [chemical binding]; other site 634459006717 Walker B motif; other site 634459006718 arginine finger; other site 634459006719 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 634459006720 putative transposase OrfB; Reviewed; Region: PHA02517 634459006721 HTH-like domain; Region: HTH_21; pfam13276 634459006722 Integrase core domain; Region: rve; pfam00665 634459006723 Integrase core domain; Region: rve_3; pfam13683 634459006724 Transposase; Region: HTH_Tnp_1; cl17663 634459006725 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 634459006726 conjugal transfer protein TrbF; Provisional; Region: PRK13872 634459006727 conjugal transfer protein TrbL; Provisional; Region: PRK13875 634459006728 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 634459006729 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459006730 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 634459006731 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 634459006732 catalytic residues [active] 634459006733 catalytic nucleophile [active] 634459006734 Recombinase; Region: Recombinase; pfam07508 634459006735 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 634459006736 non-specific DNA binding site [nucleotide binding]; other site 634459006737 salt bridge; other site 634459006738 sequence-specific DNA binding site [nucleotide binding]; other site 634459006739 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 634459006740 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459006741 putative transposase OrfB; Reviewed; Region: PHA02517 634459006742 HTH-like domain; Region: HTH_21; pfam13276 634459006743 Integrase core domain; Region: rve; pfam00665 634459006744 Integrase core domain; Region: rve_3; pfam13683 634459006745 Transposase; Region: HTH_Tnp_1; cl17663 634459006746 Uncharacterized conserved protein (DUF2285); Region: DUF2285; pfam10074 634459006747 Replication initiator protein A; Region: RPA; pfam10134 634459006748 putative transposase OrfB; Reviewed; Region: PHA02517 634459006749 HTH-like domain; Region: HTH_21; pfam13276 634459006750 Integrase core domain; Region: rve; pfam00665 634459006751 Integrase core domain; Region: rve_3; pfam13683 634459006752 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459006753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634459006754 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 634459006755 NAD(P) binding site [chemical binding]; other site 634459006756 active site 634459006757 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 634459006758 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 634459006759 Protein required for attachment to host cells; Region: Host_attach; pfam10116 634459006760 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 634459006761 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 634459006762 XdhC Rossmann domain; Region: XdhC_C; pfam13478 634459006763 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 634459006764 Ligand binding site; other site 634459006765 metal-binding site 634459006766 This group of proteins belong to a large family of YjgF/YER057c/UK114-like 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...; Region: YjgF_YER057c_UK114_like_2; cd06150 634459006767 homotrimer interaction site [polypeptide binding]; other site 634459006768 putative active site [active] 634459006769 CHAP domain; Region: CHAP; cl17642 634459006770 glycine dehydrogenase; Provisional; Region: PRK05367 634459006771 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 634459006772 tetramer interface [polypeptide binding]; other site 634459006773 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459006774 catalytic residue [active] 634459006775 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 634459006776 tetramer interface [polypeptide binding]; other site 634459006777 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459006778 catalytic residue [active] 634459006779 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 634459006780 lipoyl attachment site [posttranslational modification]; other site 634459006781 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 634459006782 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 634459006783 spermidine synthase; Provisional; Region: PRK00811 634459006784 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 634459006785 S-adenosylmethionine binding site [chemical binding]; other site 634459006786 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 634459006787 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634459006788 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459006789 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 634459006790 putative effector binding pocket; other site 634459006791 dimerization interface [polypeptide binding]; other site 634459006792 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 634459006793 active site 634459006794 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 634459006795 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 634459006796 active site 634459006797 (T/H)XGH motif; other site 634459006798 DNA gyrase, A subunit; Region: gyrA; TIGR01063 634459006799 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 634459006800 CAP-like domain; other site 634459006801 active site 634459006802 primary dimer interface [polypeptide binding]; other site 634459006803 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634459006804 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634459006805 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634459006806 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634459006807 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 634459006808 FMN binding site [chemical binding]; other site 634459006809 substrate binding site [chemical binding]; other site 634459006810 putative catalytic residue [active] 634459006811 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 634459006812 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 634459006813 RNase E interface [polypeptide binding]; other site 634459006814 trimer interface [polypeptide binding]; other site 634459006815 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 634459006816 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 634459006817 RNase E interface [polypeptide binding]; other site 634459006818 trimer interface [polypeptide binding]; other site 634459006819 active site 634459006820 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 634459006821 putative nucleic acid binding region [nucleotide binding]; other site 634459006822 G-X-X-G motif; other site 634459006823 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 634459006824 RNA binding site [nucleotide binding]; other site 634459006825 domain interface; other site 634459006826 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 634459006827 16S/18S rRNA binding site [nucleotide binding]; other site 634459006828 S13e-L30e interaction site [polypeptide binding]; other site 634459006829 25S rRNA binding site [nucleotide binding]; other site 634459006830 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 634459006831 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 634459006832 RNA binding site [nucleotide binding]; other site 634459006833 active site 634459006834 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 634459006835 Permease; Region: Permease; pfam02405 634459006836 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 634459006837 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 634459006838 Walker A/P-loop; other site 634459006839 ATP binding site [chemical binding]; other site 634459006840 Q-loop/lid; other site 634459006841 ABC transporter signature motif; other site 634459006842 Walker B; other site 634459006843 D-loop; other site 634459006844 H-loop/switch region; other site 634459006845 mce related protein; Region: MCE; pfam02470 634459006846 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 634459006847 Protein of unknown function (DUF330); Region: DUF330; pfam03886 634459006848 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634459006849 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 634459006850 putative ADP-binding pocket [chemical binding]; other site 634459006851 Clostridial hydrophobic W; Region: ChW; cl02763 634459006852 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 634459006853 binding surface 634459006854 TPR motif; other site 634459006855 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 634459006856 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 634459006857 active site 634459006858 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 634459006859 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634459006860 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 634459006861 Sel1-like repeats; Region: SEL1; smart00671 634459006862 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 634459006863 Sel1-like repeats; Region: SEL1; smart00671 634459006864 Sel1-like repeats; Region: SEL1; smart00671 634459006865 Sel1 repeat; Region: Sel1; cl02723 634459006866 Sel1-like repeats; Region: SEL1; smart00671 634459006867 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 634459006868 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634459006869 HlyD family secretion protein; Region: HlyD_3; pfam13437 634459006870 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cd02259 634459006871 putative active site [active] 634459006872 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 634459006873 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634459006874 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459006875 Walker A/P-loop; other site 634459006876 ATP binding site [chemical binding]; other site 634459006877 Q-loop/lid; other site 634459006878 ABC transporter signature motif; other site 634459006879 Walker B; other site 634459006880 D-loop; other site 634459006881 H-loop/switch region; other site 634459006882 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 634459006883 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 634459006884 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 634459006885 substrate binding pocket [chemical binding]; other site 634459006886 dimer interface [polypeptide binding]; other site 634459006887 inhibitor binding site; inhibition site 634459006888 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 634459006889 B12 binding site [chemical binding]; other site 634459006890 cobalt ligand [ion binding]; other site 634459006891 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 634459006892 Colicin V production protein; Region: Colicin_V; pfam02674 634459006893 amidophosphoribosyltransferase; Provisional; Region: PRK09123 634459006894 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 634459006895 active site 634459006896 tetramer interface [polypeptide binding]; other site 634459006897 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634459006898 active site 634459006899 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 634459006900 Protein of unknown function (DUF330); Region: DUF330; pfam03886 634459006901 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 634459006902 mce related protein; Region: MCE; pfam02470 634459006903 mce related protein; Region: MCE; pfam02470 634459006904 mce related protein; Region: MCE; pfam02470 634459006905 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 634459006906 Paraquat-inducible protein A; Region: PqiA; pfam04403 634459006907 Paraquat-inducible protein A; Region: PqiA; pfam04403 634459006908 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 634459006909 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 634459006910 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 634459006911 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 634459006912 active site 634459006913 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 634459006914 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 634459006915 ATP synthase subunit C; Region: ATP-synt_C; cl00466 634459006916 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 634459006917 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 634459006918 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 634459006919 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 634459006920 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 634459006921 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 634459006922 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 634459006923 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 634459006924 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 634459006925 FeS/SAM binding site; other site 634459006926 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 634459006927 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 634459006928 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 634459006929 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 634459006930 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 634459006931 dimer interface [polypeptide binding]; other site 634459006932 active site 634459006933 metal binding site [ion binding]; metal-binding site 634459006934 glutathione binding site [chemical binding]; other site 634459006935 DEAD-like helicases superfamily; Region: DEXDc; smart00487 634459006936 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 634459006937 ATP binding site [chemical binding]; other site 634459006938 Mg++ binding site [ion binding]; other site 634459006939 motif III; other site 634459006940 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 634459006941 nucleotide binding region [chemical binding]; other site 634459006942 ATP-binding site [chemical binding]; other site 634459006943 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 634459006944 RNA binding site [nucleotide binding]; other site 634459006945 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 634459006946 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 634459006947 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 634459006948 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 634459006949 23S rRNA interface [nucleotide binding]; other site 634459006950 L3 interface [polypeptide binding]; other site 634459006951 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634459006952 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 634459006953 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634459006954 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 634459006955 PhoU domain; Region: PhoU; pfam01895 634459006956 PhoU domain; Region: PhoU; pfam01895 634459006957 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 634459006958 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 634459006959 Walker A/P-loop; other site 634459006960 ATP binding site [chemical binding]; other site 634459006961 Q-loop/lid; other site 634459006962 ABC transporter signature motif; other site 634459006963 Walker B; other site 634459006964 D-loop; other site 634459006965 H-loop/switch region; other site 634459006966 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 634459006967 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 634459006968 dimer interface [polypeptide binding]; other site 634459006969 conserved gate region; other site 634459006970 putative PBP binding loops; other site 634459006971 ABC-ATPase subunit interface; other site 634459006972 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 634459006973 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 634459006974 dimer interface [polypeptide binding]; other site 634459006975 conserved gate region; other site 634459006976 putative PBP binding loops; other site 634459006977 ABC-ATPase subunit interface; other site 634459006978 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 634459006979 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 634459006980 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 634459006981 NADP binding site [chemical binding]; other site 634459006982 dimer interface [polypeptide binding]; other site 634459006983 Predicted membrane protein [Function unknown]; Region: COG1289 634459006984 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 634459006985 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 634459006986 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 634459006987 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 634459006988 protein binding site [polypeptide binding]; other site 634459006989 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 634459006990 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 634459006991 active site 634459006992 catalytic triad [active] 634459006993 oxyanion hole [active] 634459006994 OpgC protein; Region: OpgC_C; pfam10129 634459006995 Acyltransferase family; Region: Acyl_transf_3; pfam01757 634459006996 antiporter inner membrane protein; Provisional; Region: PRK11670 634459006997 Domain of unknown function DUF59; Region: DUF59; pfam01883 634459006998 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 634459006999 Walker A motif; other site 634459007000 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 634459007001 Stringent starvation protein B; Region: SspB; cl01120 634459007002 fumarate hydratase; Provisional; Region: PRK15389 634459007003 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 634459007004 Fumarase C-terminus; Region: Fumerase_C; pfam05683 634459007005 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 634459007006 dimer interface [polypeptide binding]; other site 634459007007 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 634459007008 metal binding site [ion binding]; metal-binding site 634459007009 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 634459007010 AntA/AntB antirepressor; Region: AntA; cl01430 634459007011 Putative glucoamylase; Region: Glycoamylase; pfam10091 634459007012 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 634459007013 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634459007014 hydroxyglutarate oxidase; Provisional; Region: PRK11728 634459007015 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 634459007016 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 634459007017 active site 634459007018 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 634459007019 dimer interface [polypeptide binding]; other site 634459007020 substrate binding site [chemical binding]; other site 634459007021 catalytic residues [active] 634459007022 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 634459007023 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 634459007024 putative DNA binding site [nucleotide binding]; other site 634459007025 putative Zn2+ binding site [ion binding]; other site 634459007026 AsnC family; Region: AsnC_trans_reg; pfam01037 634459007027 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 634459007028 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 634459007029 translation initiation factor IF-2; Region: IF-2; TIGR00487 634459007030 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 634459007031 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 634459007032 G1 box; other site 634459007033 putative GEF interaction site [polypeptide binding]; other site 634459007034 GTP/Mg2+ binding site [chemical binding]; other site 634459007035 Switch I region; other site 634459007036 G2 box; other site 634459007037 G3 box; other site 634459007038 Switch II region; other site 634459007039 G4 box; other site 634459007040 G5 box; other site 634459007041 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 634459007042 Translation-initiation factor 2; Region: IF-2; pfam11987 634459007043 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 634459007044 hypothetical protein; Provisional; Region: PRK09190 634459007045 Protein of unknown function (DUF448); Region: DUF448; pfam04296 634459007046 putative RNA binding cleft [nucleotide binding]; other site 634459007047 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 634459007048 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 634459007049 NusA N-terminal domain; Region: NusA_N; pfam08529 634459007050 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 634459007051 RNA binding site [nucleotide binding]; other site 634459007052 homodimer interface [polypeptide binding]; other site 634459007053 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 634459007054 G-X-X-G motif; other site 634459007055 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 634459007056 G-X-X-G motif; other site 634459007057 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 634459007058 hypothetical protein; Provisional; Region: PRK14636 634459007059 Sm and related proteins; Region: Sm_like; cl00259 634459007060 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 634459007061 putative RNA binding site [nucleotide binding]; other site 634459007062 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 634459007063 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 634459007064 Walker A motif; other site 634459007065 ATP binding site [chemical binding]; other site 634459007066 Walker B motif; other site 634459007067 arginine finger; other site 634459007068 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634459007069 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459007070 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 634459007071 putative effector binding pocket; other site 634459007072 dimerization interface [polypeptide binding]; other site 634459007073 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 634459007074 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 634459007075 substrate binding pocket [chemical binding]; other site 634459007076 membrane-bound complex binding site; other site 634459007077 hinge residues; other site 634459007078 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 634459007079 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 634459007080 dimer interface [polypeptide binding]; other site 634459007081 conserved gate region; other site 634459007082 putative PBP binding loops; other site 634459007083 ABC-ATPase subunit interface; other site 634459007084 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 634459007085 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459007086 Walker A/P-loop; other site 634459007087 ATP binding site [chemical binding]; other site 634459007088 Q-loop/lid; other site 634459007089 ABC transporter signature motif; other site 634459007090 Walker B; other site 634459007091 D-loop; other site 634459007092 H-loop/switch region; other site 634459007093 aconitate hydratase; Validated; Region: PRK09277 634459007094 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 634459007095 substrate binding site [chemical binding]; other site 634459007096 ligand binding site [chemical binding]; other site 634459007097 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 634459007098 substrate binding site [chemical binding]; other site 634459007099 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 634459007100 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459007101 Walker A/P-loop; other site 634459007102 ATP binding site [chemical binding]; other site 634459007103 Q-loop/lid; other site 634459007104 ABC transporter signature motif; other site 634459007105 Walker B; other site 634459007106 D-loop; other site 634459007107 H-loop/switch region; other site 634459007108 CcmB protein; Region: CcmB; pfam03379 634459007109 hypothetical protein; Provisional; Region: PRK10316 634459007110 YfdX protein; Region: YfdX; pfam10938 634459007111 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 634459007112 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 634459007113 dimer interface [polypeptide binding]; other site 634459007114 active site 634459007115 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 634459007116 catalytic residues [active] 634459007117 substrate binding site [chemical binding]; other site 634459007118 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 634459007119 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 634459007120 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 634459007121 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 634459007122 Dehydroquinase class II; Region: DHquinase_II; pfam01220 634459007123 trimer interface [polypeptide binding]; other site 634459007124 active site 634459007125 dimer interface [polypeptide binding]; other site 634459007126 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 634459007127 carboxyltransferase (CT) interaction site; other site 634459007128 biotinylation site [posttranslational modification]; other site 634459007129 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 634459007130 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 634459007131 ATP-grasp domain; Region: ATP-grasp_4; cl17255 634459007132 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 634459007133 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 634459007134 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 634459007135 putative substrate translocation pore; other site 634459007136 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 634459007137 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 634459007138 ThiC-associated domain; Region: ThiC-associated; pfam13667 634459007139 ThiC family; Region: ThiC; pfam01964 634459007140 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 634459007141 Iron permease FTR1 family; Region: FTR1; cl00475 634459007142 Fe2+ transport protein; Region: Iron_transport; cl01377 634459007143 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634459007144 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 634459007145 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 634459007146 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634459007147 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 634459007148 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459007149 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 634459007150 dimerization interface [polypeptide binding]; other site 634459007151 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 634459007152 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 634459007153 inhibitor-cofactor binding pocket; inhibition site 634459007154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459007155 catalytic residue [active] 634459007156 Synuclein; Region: Synuclein; pfam01387 634459007157 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 634459007158 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 634459007159 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 634459007160 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 634459007161 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 634459007162 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 634459007163 GatB domain; Region: GatB_Yqey; smart00845 634459007164 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 634459007165 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634459007166 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459007167 Walker A/P-loop; other site 634459007168 ATP binding site [chemical binding]; other site 634459007169 Q-loop/lid; other site 634459007170 ABC transporter signature motif; other site 634459007171 Walker B; other site 634459007172 D-loop; other site 634459007173 H-loop/switch region; other site 634459007174 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 634459007175 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 634459007176 minor groove reading motif; other site 634459007177 helix-hairpin-helix signature motif; other site 634459007178 substrate binding pocket [chemical binding]; other site 634459007179 active site 634459007180 ferrochelatase; Reviewed; Region: hemH; PRK00035 634459007181 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 634459007182 C-terminal domain interface [polypeptide binding]; other site 634459007183 active site 634459007184 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 634459007185 active site 634459007186 N-terminal domain interface [polypeptide binding]; other site 634459007187 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 634459007188 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 634459007189 minor groove reading motif; other site 634459007190 helix-hairpin-helix signature motif; other site 634459007191 substrate binding pocket [chemical binding]; other site 634459007192 active site 634459007193 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 634459007194 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 634459007195 DNA binding and oxoG recognition site [nucleotide binding] 634459007196 Protein of unknown function (DUF721); Region: DUF721; cl02324 634459007197 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 634459007198 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 634459007199 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634459007200 catalytic residue [active] 634459007201 Sporulation related domain; Region: SPOR; cl10051 634459007202 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 634459007203 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 634459007204 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 634459007205 HIGH motif; other site 634459007206 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 634459007207 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634459007208 active site 634459007209 KMSKS motif; other site 634459007210 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 634459007211 tRNA binding surface [nucleotide binding]; other site 634459007212 Lipopolysaccharide-assembly; Region: LptE; pfam04390 634459007213 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 634459007214 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 634459007215 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 634459007216 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634459007217 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634459007218 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 634459007219 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 634459007220 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 634459007221 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 634459007222 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 634459007223 Ligand binding site [chemical binding]; other site 634459007224 Electron transfer flavoprotein domain; Region: ETF; pfam01012 634459007225 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 634459007226 hydroxyglutarate oxidase; Provisional; Region: PRK11728 634459007227 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 634459007228 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 634459007229 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 634459007230 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 634459007231 FeS/SAM binding site; other site 634459007232 HemN C-terminal domain; Region: HemN_C; pfam06969 634459007233 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 634459007234 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 634459007235 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 634459007236 ligand binding site [chemical binding]; other site 634459007237 flexible hinge region; other site 634459007238 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 634459007239 putative switch regulator; other site 634459007240 non-specific DNA interactions [nucleotide binding]; other site 634459007241 DNA binding site [nucleotide binding] 634459007242 sequence specific DNA binding site [nucleotide binding]; other site 634459007243 putative cAMP binding site [chemical binding]; other site 634459007244 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 634459007245 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 634459007246 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 634459007247 protein binding site [polypeptide binding]; other site 634459007248 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 634459007249 protein binding site [polypeptide binding]; other site 634459007250 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 634459007251 nucleoside/Zn binding site; other site 634459007252 dimer interface [polypeptide binding]; other site 634459007253 catalytic motif [active] 634459007254 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 634459007255 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 634459007256 catalytic triad [active] 634459007257 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 634459007258 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 634459007259 RNA binding surface [nucleotide binding]; other site 634459007260 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 634459007261 active site 634459007262 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 634459007263 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 634459007264 S-adenosylmethionine binding site [chemical binding]; other site 634459007265 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 634459007266 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 634459007267 dimer interface [polypeptide binding]; other site 634459007268 ssDNA binding site [nucleotide binding]; other site 634459007269 tetramer (dimer of dimers) interface [polypeptide binding]; other site 634459007270 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 634459007271 O-Antigen ligase; Region: Wzy_C; pfam04932 634459007272 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 634459007273 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 634459007274 active site 634459007275 catalytic residues [active] 634459007276 DNA binding site [nucleotide binding] 634459007277 Int/Topo IB signature motif; other site 634459007278 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634459007279 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 634459007280 catalytic residues [active] 634459007281 catalytic nucleophile [active] 634459007282 Presynaptic Site I dimer interface [polypeptide binding]; other site 634459007283 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634459007284 Synaptic Flat tetramer interface [polypeptide binding]; other site 634459007285 Synaptic Site I dimer interface [polypeptide binding]; other site 634459007286 DNA binding site [nucleotide binding] 634459007287 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 634459007288 DNA-binding interface [nucleotide binding]; DNA binding site 634459007289 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459007290 DEAD-like helicases superfamily; Region: DEXDc; smart00487 634459007291 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 634459007292 ATP binding site [chemical binding]; other site 634459007293 putative Mg++ binding site [ion binding]; other site 634459007294 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459007295 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459007296 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634459007297 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634459007298 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 634459007299 putative ADP-binding pocket [chemical binding]; other site 634459007300 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 634459007301 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 634459007302 active site 634459007303 HIGH motif; other site 634459007304 dimer interface [polypeptide binding]; other site 634459007305 KMSKS motif; other site 634459007306 protease TldD; Provisional; Region: tldD; PRK10735 634459007307 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 634459007308 catalytic core [active] 634459007309 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 634459007310 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 634459007311 NAD binding site [chemical binding]; other site 634459007312 substrate binding site [chemical binding]; other site 634459007313 homodimer interface [polypeptide binding]; other site 634459007314 active site 634459007315 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 634459007316 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 634459007317 substrate binding site; other site 634459007318 tetramer interface; other site 634459007319 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 634459007320 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 634459007321 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 634459007322 NADP binding site [chemical binding]; other site 634459007323 active site 634459007324 putative substrate binding site [chemical binding]; other site 634459007325 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 634459007326 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 634459007327 Probable Catalytic site; other site 634459007328 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 634459007329 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 634459007330 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 634459007331 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 634459007332 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 634459007333 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 634459007334 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634459007335 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 634459007336 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 634459007337 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 634459007338 putative C-terminal domain interface [polypeptide binding]; other site 634459007339 putative GSH binding site (G-site) [chemical binding]; other site 634459007340 putative dimer interface [polypeptide binding]; other site 634459007341 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 634459007342 putative N-terminal domain interface [polypeptide binding]; other site 634459007343 putative dimer interface [polypeptide binding]; other site 634459007344 putative substrate binding pocket (H-site) [chemical binding]; other site 634459007345 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 634459007346 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 634459007347 Ligand Binding Site [chemical binding]; other site 634459007348 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 634459007349 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 634459007350 catalytic loop [active] 634459007351 iron binding site [ion binding]; other site 634459007352 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 634459007353 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 634459007354 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634459007355 catalytic residue [active] 634459007356 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 634459007357 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634459007358 catalytic residue [active] 634459007359 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 634459007360 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 634459007361 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 634459007362 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 634459007363 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 634459007364 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 634459007365 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 634459007366 active site 634459007367 HIGH motif; other site 634459007368 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 634459007369 KMSKS motif; other site 634459007370 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 634459007371 tRNA binding surface [nucleotide binding]; other site 634459007372 anticodon binding site; other site 634459007373 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 634459007374 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634459007375 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 634459007376 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 634459007377 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 634459007378 catalytic residues [active] 634459007379 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 634459007380 Family description; Region: UvrD_C_2; pfam13538 634459007381 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 634459007382 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 634459007383 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 634459007384 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 634459007385 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634459007386 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 634459007387 active site 634459007388 phosphorylation site [posttranslational modification] 634459007389 intermolecular recognition site; other site 634459007390 dimerization interface [polypeptide binding]; other site 634459007391 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 634459007392 DNA binding site [nucleotide binding] 634459007393 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 634459007394 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 634459007395 active site 634459007396 substrate binding site [chemical binding]; other site 634459007397 metal binding site [ion binding]; metal-binding site 634459007398 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 634459007399 dihydropteroate synthase; Region: DHPS; TIGR01496 634459007400 substrate binding pocket [chemical binding]; other site 634459007401 dimer interface [polypeptide binding]; other site 634459007402 inhibitor binding site; inhibition site 634459007403 FtsH Extracellular; Region: FtsH_ext; pfam06480 634459007404 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 634459007405 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 634459007406 Walker A motif; other site 634459007407 ATP binding site [chemical binding]; other site 634459007408 Walker B motif; other site 634459007409 arginine finger; other site 634459007410 Peptidase family M41; Region: Peptidase_M41; pfam01434 634459007411 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 634459007412 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 634459007413 Ligand Binding Site [chemical binding]; other site 634459007414 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 634459007415 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 634459007416 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 634459007417 ligand binding site [chemical binding]; other site 634459007418 translocation protein TolB; Provisional; Region: tolB; PRK05137 634459007419 TolB amino-terminal domain; Region: TolB_N; pfam04052 634459007420 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 634459007421 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 634459007422 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634459007423 TolR protein; Region: tolR; TIGR02801 634459007424 TolQ protein; Region: tolQ; TIGR02796 634459007425 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 634459007426 active site 634459007427 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 634459007428 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 634459007429 Walker A motif; other site 634459007430 ATP binding site [chemical binding]; other site 634459007431 Walker B motif; other site 634459007432 arginine finger; other site 634459007433 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 634459007434 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 634459007435 RuvA N terminal domain; Region: RuvA_N; pfam01330 634459007436 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 634459007437 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 634459007438 active site 634459007439 putative DNA-binding cleft [nucleotide binding]; other site 634459007440 dimer interface [polypeptide binding]; other site 634459007441 hypothetical protein; Validated; Region: PRK00110 634459007442 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 634459007443 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 634459007444 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; cl17351 634459007445 nucleotide binding region [chemical binding]; other site 634459007446 ATP-binding site [chemical binding]; other site 634459007447 SEC-C motif; Region: SEC-C; pfam02810 634459007448 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 634459007449 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 634459007450 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 634459007451 heterotetramer interface [polypeptide binding]; other site 634459007452 active site pocket [active] 634459007453 cleavage site 634459007454 RDD family; Region: RDD; pfam06271 634459007455 putative mechanosensitive channel protein; Provisional; Region: PRK11465 634459007456 Mechanosensitive ion channel; Region: MS_channel; pfam00924 634459007457 Biofilm formation and stress response factor; Region: BsmA; pfam10014 634459007458 chaperone protein DnaJ; Provisional; Region: PRK14299 634459007459 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 634459007460 HSP70 interaction site [polypeptide binding]; other site 634459007461 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 634459007462 substrate binding site [polypeptide binding]; other site 634459007463 dimer interface [polypeptide binding]; other site 634459007464 Membrane fusogenic activity; Region: BMFP; pfam04380 634459007465 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 634459007466 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 634459007467 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 634459007468 H+ Antiporter protein; Region: 2A0121; TIGR00900 634459007469 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 634459007470 IHF dimer interface [polypeptide binding]; other site 634459007471 IHF - DNA interface [nucleotide binding]; other site 634459007472 Rhamnan synthesis protein F; Region: RgpF; pfam05045 634459007473 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 634459007474 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634459007475 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634459007476 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 634459007477 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634459007478 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 634459007479 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 634459007480 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 634459007481 active site 634459007482 NAD synthetase; Reviewed; Region: nadE; PRK02628 634459007483 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 634459007484 multimer interface [polypeptide binding]; other site 634459007485 active site 634459007486 catalytic triad [active] 634459007487 protein interface 1 [polypeptide binding]; other site 634459007488 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 634459007489 homodimer interface [polypeptide binding]; other site 634459007490 NAD binding pocket [chemical binding]; other site 634459007491 ATP binding pocket [chemical binding]; other site 634459007492 Mg binding site [ion binding]; other site 634459007493 active-site loop [active] 634459007494 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 634459007495 putative active site pocket [active] 634459007496 4-fold oligomerization interface [polypeptide binding]; other site 634459007497 metal binding residues [ion binding]; metal-binding site 634459007498 3-fold/trimer interface [polypeptide binding]; other site 634459007499 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 634459007500 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 634459007501 putative active site [active] 634459007502 oxyanion strand; other site 634459007503 catalytic triad [active] 634459007504 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 634459007505 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634459007506 Coenzyme A binding pocket [chemical binding]; other site 634459007507 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 634459007508 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 634459007509 catalytic residues [active] 634459007510 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 634459007511 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 634459007512 substrate binding site [chemical binding]; other site 634459007513 glutamase interaction surface [polypeptide binding]; other site 634459007514 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 634459007515 metal binding site [ion binding]; metal-binding site 634459007516 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 634459007517 nucleotide binding site/active site [active] 634459007518 HIT family signature motif; other site 634459007519 catalytic residue [active] 634459007520 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 634459007521 putative FMN binding site [chemical binding]; other site 634459007522 hypothetical protein; Provisional; Region: PRK09126 634459007523 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 634459007524 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 634459007525 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 634459007526 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 634459007527 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 634459007528 putative C-terminal domain interface [polypeptide binding]; other site 634459007529 putative GSH binding site (G-site) [chemical binding]; other site 634459007530 putative dimer interface [polypeptide binding]; other site 634459007531 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 634459007532 putative N-terminal domain interface [polypeptide binding]; other site 634459007533 putative dimer interface [polypeptide binding]; other site 634459007534 putative substrate binding pocket (H-site) [chemical binding]; other site 634459007535 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 634459007536 ParB-like nuclease domain; Region: ParB; smart00470 634459007537 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 634459007538 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 634459007539 P-loop; other site 634459007540 Magnesium ion binding site [ion binding]; other site 634459007541 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 634459007542 Magnesium ion binding site [ion binding]; other site 634459007543 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 634459007544 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 634459007545 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 634459007546 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 634459007547 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 634459007548 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 634459007549 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 634459007550 trmE is a tRNA modification GTPase; Region: trmE; cd04164 634459007551 G1 box; other site 634459007552 GTP/Mg2+ binding site [chemical binding]; other site 634459007553 Switch I region; other site 634459007554 G2 box; other site 634459007555 Switch II region; other site 634459007556 G3 box; other site 634459007557 G4 box; other site 634459007558 G5 box; other site 634459007559 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 634459007560 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 634459007561 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 634459007562 DNA binding site [nucleotide binding] 634459007563 active site 634459007564 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459007565 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459007566 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 634459007567 major facilitator superfamily transporter; Provisional; Region: PRK05122 634459007568 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 634459007569 putative substrate translocation pore; other site 634459007570 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 634459007571 dimer interface [polypeptide binding]; other site 634459007572 ADP-ribose binding site [chemical binding]; other site 634459007573 active site 634459007574 nudix motif; other site 634459007575 metal binding site [ion binding]; metal-binding site 634459007576 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 634459007577 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 634459007578 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 634459007579 motif II; other site 634459007580 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 634459007581 substrate binding site [chemical binding]; other site 634459007582 active site 634459007583 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 634459007584 active site 634459007585 dimer interface [polypeptide binding]; other site 634459007586 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 634459007587 Phage Terminase; Region: Terminase_1; pfam03354 634459007588 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634459007589 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 634459007590 catalytic residues [active] 634459007591 catalytic nucleophile [active] 634459007592 Presynaptic Site I dimer interface [polypeptide binding]; other site 634459007593 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634459007594 Synaptic Flat tetramer interface [polypeptide binding]; other site 634459007595 Synaptic Site I dimer interface [polypeptide binding]; other site 634459007596 DNA binding site [nucleotide binding] 634459007597 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 634459007598 DNA-binding interface [nucleotide binding]; DNA binding site 634459007599 hypothetical protein; Provisional; Region: PRK14709 634459007600 D5 N terminal like; Region: D5_N; smart00885 634459007601 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 634459007602 polymerase nucleotide-binding site; other site 634459007603 DNA-binding residues [nucleotide binding]; DNA binding site 634459007604 nucleotide binding site [chemical binding]; other site 634459007605 primase nucleotide-binding site [nucleotide binding]; other site 634459007606 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 634459007607 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459007608 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 634459007609 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 634459007610 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634459007611 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459007612 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459007613 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634459007614 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634459007615 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634459007616 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 634459007617 active site 634459007618 NTP binding site [chemical binding]; other site 634459007619 metal binding triad [ion binding]; metal-binding site 634459007620 antibiotic binding site [chemical binding]; other site 634459007621 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 634459007622 HsdM N-terminal domain; Region: HsdM_N; pfam12161 634459007623 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 634459007624 Methyltransferase domain; Region: Methyltransf_26; pfam13659 634459007625 S-adenosylmethionine binding site [chemical binding]; other site 634459007626 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 634459007627 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 634459007628 FMN binding site [chemical binding]; other site 634459007629 active site 634459007630 substrate binding site [chemical binding]; other site 634459007631 catalytic residue [active] 634459007632 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634459007633 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 634459007634 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459007635 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634459007636 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459007637 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 634459007638 putative substrate binding pocket [chemical binding]; other site 634459007639 dimerization interface [polypeptide binding]; other site 634459007640 acetylornithine deacetylase; Provisional; Region: PRK07522 634459007641 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 634459007642 metal binding site [ion binding]; metal-binding site 634459007643 putative dimer interface [polypeptide binding]; other site 634459007644 choline dehydrogenase; Validated; Region: PRK02106 634459007645 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 634459007646 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 634459007647 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 634459007648 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 634459007649 Na binding site [ion binding]; other site 634459007650 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; cl10015 634459007651 homotrimer interaction site [polypeptide binding]; other site 634459007652 putative active site [active] 634459007653 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634459007654 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 634459007655 NAD(P) binding site [chemical binding]; other site 634459007656 catalytic residues [active] 634459007657 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 634459007658 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 634459007659 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 634459007660 Transposase; Region: HTH_Tnp_1; pfam01527 634459007661 HTH-like domain; Region: HTH_21; pfam13276 634459007662 Integrase core domain; Region: rve; pfam00665 634459007663 Integrase core domain; Region: rve_3; pfam13683 634459007664 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 634459007665 NMT1-like family; Region: NMT1_2; pfam13379 634459007666 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 634459007667 cheY-homologous receiver domain; Region: REC; smart00448 634459007668 ANTAR domain; Region: ANTAR; pfam03861 634459007669 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 634459007670 molybdopterin cofactor binding site; other site 634459007671 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 634459007672 molybdopterin cofactor binding site; other site 634459007673 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 634459007674 Flavodoxin; Region: Flavodoxin_1; pfam00258 634459007675 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 634459007676 FAD binding pocket [chemical binding]; other site 634459007677 conserved FAD binding motif [chemical binding]; other site 634459007678 phosphate binding motif [ion binding]; other site 634459007679 beta-alpha-beta structure motif; other site 634459007680 NAD binding pocket [chemical binding]; other site 634459007681 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459007682 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459007683 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634459007684 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 634459007685 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 634459007686 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 634459007687 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 634459007688 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 634459007689 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 634459007690 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 634459007691 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 634459007692 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 634459007693 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 634459007694 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 634459007695 sensor protein QseC; Provisional; Region: PRK10337 634459007696 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634459007697 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 634459007698 dimer interface [polypeptide binding]; other site 634459007699 phosphorylation site [posttranslational modification] 634459007700 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634459007701 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 634459007702 active site 634459007703 phosphorylation site [posttranslational modification] 634459007704 intermolecular recognition site; other site 634459007705 dimerization interface [polypeptide binding]; other site 634459007706 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 634459007707 DNA binding site [nucleotide binding] 634459007708 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 634459007709 HlyD family secretion protein; Region: HlyD_2; pfam12700 634459007710 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634459007711 HlyD family secretion protein; Region: HlyD_3; pfam13437 634459007712 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 634459007713 Outer membrane efflux protein; Region: OEP; pfam02321 634459007714 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 634459007715 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634459007716 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 634459007717 methionine synthase; Provisional; Region: PRK01207 634459007718 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 634459007719 substrate binding site [chemical binding]; other site 634459007720 THF binding site; other site 634459007721 zinc-binding site [ion binding]; other site 634459007722 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634459007723 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459007724 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 634459007725 putative dimerization interface [polypeptide binding]; other site 634459007726 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634459007727 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459007728 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459007729 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 634459007730 non-specific DNA binding site [nucleotide binding]; other site 634459007731 salt bridge; other site 634459007732 sequence-specific DNA binding site [nucleotide binding]; other site 634459007733 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 634459007734 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 634459007735 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 634459007736 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 634459007737 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 634459007738 arsenical pump membrane protein; Provisional; Region: PRK15445 634459007739 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 634459007740 transmembrane helices; other site 634459007741 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 634459007742 ArsC family; Region: ArsC; pfam03960 634459007743 catalytic residues [active] 634459007744 Protein of unknown function DUF45; Region: DUF45; pfam01863 634459007745 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 634459007746 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 634459007747 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 634459007748 ATP binding site [chemical binding]; other site 634459007749 putative Mg++ binding site [ion binding]; other site 634459007750 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634459007751 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634459007752 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634459007753 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 634459007754 HsdM N-terminal domain; Region: HsdM_N; pfam12161 634459007755 Methyltransferase domain; Region: Methyltransf_26; pfam13659 634459007756 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 634459007757 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634459007758 HTH-like domain; Region: HTH_21; pfam13276 634459007759 Integrase core domain; Region: rve; pfam00665 634459007760 Integrase core domain; Region: rve_3; pfam13683 634459007761 Transposase; Region: HTH_Tnp_1; pfam01527 634459007762 CCC1-related family of proteins; Region: CCC1_like; cl00278 634459007763 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 634459007764 ArsC family; Region: ArsC; pfam03960 634459007765 catalytic residues [active] 634459007766 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 634459007767 Transposase; Region: HTH_Tnp_1; cl17663 634459007768 putative transposase OrfB; Reviewed; Region: PHA02517 634459007769 HTH-like domain; Region: HTH_21; pfam13276 634459007770 Integrase core domain; Region: rve; pfam00665 634459007771 Integrase core domain; Region: rve_3; pfam13683 634459007772 Integrase core domain; Region: rve; pfam00665 634459007773 Integrase core domain; Region: rve_3; pfam13683 634459007774 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634459007775 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459007776 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 634459007777 putative substrate binding pocket [chemical binding]; other site 634459007778 putative dimerization interface [polypeptide binding]; other site 634459007779 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 634459007780 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 634459007781 Transposase; Region: HTH_Tnp_1; cl17663 634459007782 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634459007783 HTH-like domain; Region: HTH_21; pfam13276 634459007784 Integrase core domain; Region: rve; pfam00665 634459007785 Integrase core domain; Region: rve_3; pfam13683 634459007786 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 634459007787 oligomeric interface; other site 634459007788 putative active site [active] 634459007789 homodimer interface [polypeptide binding]; other site 634459007790 Integrase core domain; Region: rve; pfam00665 634459007791 Winged helix-turn helix; Region: HTH_29; pfam13551 634459007792 Integrase core domain; Region: rve; pfam00665 634459007793 Transposase; Region: HTH_Tnp_1; pfam01527 634459007794 HTH-like domain; Region: HTH_21; pfam13276 634459007795 Integrase core domain; Region: rve; pfam00665 634459007796 Integrase core domain; Region: rve_3; pfam13683 634459007797 K+ potassium transporter; Region: K_trans; pfam02705 634459007798 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 634459007799 HTH-like domain; Region: HTH_21; pfam13276 634459007800 Integrase core domain; Region: rve; pfam00665 634459007801 Integrase core domain; Region: rve_3; pfam13683 634459007802 Transposase; Region: HTH_Tnp_1; pfam01527 634459007803 K+ potassium transporter; Region: K_trans; cl15781 634459007804 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 634459007805 Walker A motif; other site 634459007806 ATP binding site [chemical binding]; other site 634459007807 Walker B motif; other site 634459007808 arginine finger; other site 634459007809 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 634459007810 Integrase core domain; Region: rve; pfam00665 634459007811 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459007812 TrwC relaxase; Region: TrwC; pfam08751 634459007813 Integrase core domain; Region: rve; pfam00665 634459007814 Integrase core domain; Region: rve_3; pfam13683 634459007815 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459007816 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 634459007817 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 634459007818 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 634459007819 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634459007820 catalytic residue [active] 634459007821 Dot/Icm secretion system ATPase DotB; Region: dot_icm_DotB; TIGR02524 634459007822 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 634459007823 Walker A motif; other site 634459007824 ATP binding site [chemical binding]; other site 634459007825 Walker B motif; other site 634459007826 RelB antitoxin; Region: RelB; cl01171 634459007827 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 634459007828 AAA-like domain; Region: AAA_10; pfam12846 634459007829 Transposase; Region: HTH_Tnp_1; pfam01527 634459007830 HTH-like domain; Region: HTH_21; pfam13276 634459007831 Integrase core domain; Region: rve; pfam00665 634459007832 Integrase core domain; Region: rve_3; pfam13683 634459007833 Protein of unknown function (DUF2859); Region: DUF2859; cl12633 634459007834 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459007835 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634459007836 active site 634459007837 Transposase; Region: HTH_Tnp_1; cl17663 634459007838 HTH-like domain; Region: HTH_21; pfam13276 634459007839 Integrase core domain; Region: rve; pfam00665 634459007840 Integrase core domain; Region: rve_3; pfam13683 634459007841 Hint domain; Region: Hint_2; pfam13403 634459007842 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634459007843 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459007844 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 634459007845 putative active site [active] 634459007846 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 634459007847 HTH-like domain; Region: HTH_21; pfam13276 634459007848 Integrase core domain; Region: rve; pfam00665 634459007849 Integrase core domain; Region: rve_3; pfam13683 634459007850 Transposase; Region: HTH_Tnp_1; pfam01527 634459007851 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 634459007852 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 634459007853 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 634459007854 active site 634459007855 DNA binding site [nucleotide binding] 634459007856 Int/Topo IB signature motif; other site 634459007857 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 634459007858 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 634459007859 Outer membrane efflux protein; Region: OEP; pfam02321 634459007860 Outer membrane efflux protein; Region: OEP; pfam02321 634459007861 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 634459007862 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 634459007863 DNA binding residues [nucleotide binding] 634459007864 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 634459007865 dimer interface [polypeptide binding]; other site 634459007866 putative metal binding site [ion binding]; other site 634459007867 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 634459007868 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 634459007869 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 634459007870 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 634459007871 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 634459007872 Soluble P-type ATPase [General function prediction only]; Region: COG4087 634459007873 potassium-transporting ATPase subunit C; Provisional; Region: PRK13999 634459007874 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 634459007875 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 634459007876 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 634459007877 Ligand Binding Site [chemical binding]; other site 634459007878 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 634459007879 GAF domain; Region: GAF_3; pfam13492 634459007880 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 634459007881 dimer interface [polypeptide binding]; other site 634459007882 phosphorylation site [posttranslational modification] 634459007883 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 634459007884 ATP binding site [chemical binding]; other site 634459007885 Mg2+ binding site [ion binding]; other site 634459007886 G-X-G motif; other site 634459007887 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634459007888 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 634459007889 active site 634459007890 phosphorylation site [posttranslational modification] 634459007891 intermolecular recognition site; other site 634459007892 dimerization interface [polypeptide binding]; other site 634459007893 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 634459007894 DNA binding site [nucleotide binding] 634459007895 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634459007896 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634459007897 short chain dehydrogenase; Provisional; Region: PRK06180 634459007898 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 634459007899 NADP binding site [chemical binding]; other site 634459007900 active site 634459007901 steroid binding site; other site 634459007902 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 634459007903 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 634459007904 potential catalytic triad [active] 634459007905 conserved cys residue [active] 634459007906 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 634459007907 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 634459007908 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 634459007909 ATP binding site [chemical binding]; other site 634459007910 putative Mg++ binding site [ion binding]; other site 634459007911 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634459007912 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 634459007913 HsdM N-terminal domain; Region: HsdM_N; pfam12161 634459007914 Methyltransferase domain; Region: Methyltransf_26; pfam13659 634459007915 Helix-turn-helix domain; Region: HTH_17; pfam12728 634459007916 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 634459007917 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 634459007918 active site 634459007919 DNA binding site [nucleotide binding] 634459007920 Int/Topo IB signature motif; other site 634459007921 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 634459007922 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 634459007923 oligomeric interface; other site 634459007924 putative active site [active] 634459007925 homodimer interface [polypeptide binding]; other site 634459007926 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 634459007927 Integrase core domain; Region: rve; pfam00665 634459007928 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 634459007929 Walker A motif; other site 634459007930 ATP binding site [chemical binding]; other site 634459007931 Walker B motif; other site 634459007932 arginine finger; other site 634459007933 Post-segregation antitoxin CcdA; Region: CcdA; pfam07362 634459007934 CcdB protein; Region: CcdB; cl03380 634459007935 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 634459007936 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459007937 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634459007938 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634459007939 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 634459007940 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634459007941 Transposase; Region: HTH_Tnp_1; cl17663 634459007942 Helix-turn-helix domain; Region: HTH_28; pfam13518 634459007943 Winged helix-turn helix; Region: HTH_29; pfam13551 634459007944 Homeodomain-like domain; Region: HTH_32; pfam13565 634459007945 Integrase core domain; Region: rve; pfam00665 634459007946 Integrase core domain; Region: rve_3; pfam13683 634459007947 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 634459007948 ParB-like nuclease domain; Region: ParBc; pfam02195 634459007949 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 634459007950 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 634459007951 S-adenosylmethionine binding site [chemical binding]; other site 634459007952 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 634459007953 DEAD-like helicases superfamily; Region: DEXDc; smart00487 634459007954 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 634459007955 helicase superfamily c-terminal domain; Region: HELICc; smart00490 634459007956 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459007957 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459007958 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634459007959 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 634459007960 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 634459007961 active site 634459007962 DNA binding site [nucleotide binding] 634459007963 Int/Topo IB signature motif; other site 634459007964 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634459007965 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 634459007966 DDE superfamily endonuclease; Region: DDE_5; cl17874 634459007967 putative transposase OrfB; Reviewed; Region: PHA02517 634459007968 HTH-like domain; Region: HTH_21; pfam13276 634459007969 Integrase core domain; Region: rve; pfam00665 634459007970 Integrase core domain; Region: rve_3; pfam13683 634459007971 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634459007972 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 634459007973 catalytic residues [active] 634459007974 catalytic nucleophile [active] 634459007975 Presynaptic Site I dimer interface [polypeptide binding]; other site 634459007976 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634459007977 Synaptic Flat tetramer interface [polypeptide binding]; other site 634459007978 Synaptic Site I dimer interface [polypeptide binding]; other site 634459007979 DNA binding site [nucleotide binding] 634459007980 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 634459007981 DNA-binding interface [nucleotide binding]; DNA binding site 634459007982 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG1569 634459007983 Conjugal transfer protein TraD; Region: TraD; pfam06412 634459007984 putative transposase OrfB; Reviewed; Region: PHA02517 634459007985 HTH-like domain; Region: HTH_21; pfam13276 634459007986 Integrase core domain; Region: rve; pfam00665 634459007987 Integrase core domain; Region: rve_3; pfam13683 634459007988 Transposase; Region: HTH_Tnp_1; cl17663 634459007989 Hint domain; Region: Hint_2; pfam13403 634459007990 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459007991 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634459007992 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 634459007993 HTH-like domain; Region: HTH_21; pfam13276 634459007994 Integrase core domain; Region: rve; pfam00665 634459007995 Integrase core domain; Region: rve_3; pfam13683 634459007996 Transposase; Region: HTH_Tnp_1; pfam01527 634459007997 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 634459007998 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 634459007999 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 634459008000 DNA-binding interface [nucleotide binding]; DNA binding site 634459008001 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634459008002 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 634459008003 catalytic residues [active] 634459008004 catalytic nucleophile [active] 634459008005 Presynaptic Site I dimer interface [polypeptide binding]; other site 634459008006 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634459008007 Synaptic Flat tetramer interface [polypeptide binding]; other site 634459008008 Synaptic Site I dimer interface [polypeptide binding]; other site 634459008009 DNA binding site [nucleotide binding] 634459008010 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 634459008011 DNA-binding interface [nucleotide binding]; DNA binding site 634459008012 Winged helix-turn helix; Region: HTH_29; pfam13551 634459008013 Helix-turn-helix domain; Region: HTH_28; pfam13518 634459008014 Homeodomain-like domain; Region: HTH_32; pfam13565 634459008015 Integrase core domain; Region: rve; pfam00665 634459008016 Integrase core domain; Region: rve_3; cl15866 634459008017 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 634459008018 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 634459008019 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 634459008020 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634459008021 catalytic residues [active] 634459008022 catalytic nucleophile [active] 634459008023 Presynaptic Site I dimer interface [polypeptide binding]; other site 634459008024 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634459008025 Synaptic Flat tetramer interface [polypeptide binding]; other site 634459008026 Synaptic Site I dimer interface [polypeptide binding]; other site 634459008027 DNA binding site [nucleotide binding] 634459008028 ParA-like protein; Provisional; Region: PHA02518 634459008029 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 634459008030 P-loop; other site 634459008031 Magnesium ion binding site [ion binding]; other site 634459008032 Replication initiator protein A; Region: RPA; pfam10134 634459008033 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 634459008034 putative addiction module antidote; Region: doc_partner; TIGR02609 634459008035 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 634459008036 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 634459008037 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 634459008038 putative active site [active] 634459008039 Protein of unknown function (DUF3680); Region: DUF3680; pfam12441 634459008040 Conjugal transfer protein TraD; Region: TraD; pfam06412 634459008041 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 634459008042 MobA/MobL family; Region: MobA_MobL; pfam03389 634459008043 AAA domain; Region: AAA_30; pfam13604 634459008044 Family description; Region: UvrD_C_2; pfam13538 634459008045 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 634459008046 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 634459008047 oligomeric interface; other site 634459008048 putative active site [active] 634459008049 homodimer interface [polypeptide binding]; other site 634459008050 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 634459008051 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459008052 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 634459008053 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 634459008054 catalytic residues [active] 634459008055 catalytic nucleophile [active] 634459008056 AAA domain; Region: AAA_31; pfam13614 634459008057 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 634459008058 P-loop; other site 634459008059 Magnesium ion binding site [ion binding]; other site 634459008060 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 634459008061 non-specific DNA binding site [nucleotide binding]; other site 634459008062 salt bridge; other site 634459008063 sequence-specific DNA binding site [nucleotide binding]; other site 634459008064 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 634459008065 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 634459008066 HTH-like domain; Region: HTH_21; pfam13276 634459008067 Integrase core domain; Region: rve; pfam00665 634459008068 Integrase core domain; Region: rve_3; pfam13683 634459008069 Transposase; Region: HTH_Tnp_1; pfam01527 634459008070 T5orf172 domain; Region: T5orf172; pfam10544 634459008071 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 634459008072 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 634459008073 Pseudomurein-binding repeat; Region: PMBR; pfam09373 634459008074 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 634459008075 Methyltransferase domain; Region: Methyltransf_26; pfam13659 634459008076 Fic family protein [Function unknown]; Region: COG3177 634459008077 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 634459008078 Fic/DOC family; Region: Fic; pfam02661 634459008079 PemK-like protein; Region: PemK; pfam02452 634459008080 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 634459008081 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 634459008082 Presynaptic Site I dimer interface [polypeptide binding]; other site 634459008083 catalytic residues [active] 634459008084 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634459008085 Synaptic Flat tetramer interface [polypeptide binding]; other site 634459008086 Synaptic Site I dimer interface [polypeptide binding]; other site 634459008087 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 634459008088 DNA-binding interface [nucleotide binding]; DNA binding site 634459008089 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459008090 Hint domain; Region: Hint_2; pfam13403 634459008091 Transposase; Region: HTH_Tnp_1; pfam01527 634459008092 HTH-like domain; Region: HTH_21; pfam13276 634459008093 Integrase core domain; Region: rve; pfam00665 634459008094 Integrase core domain; Region: rve_3; pfam13683 634459008095 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 634459008096 non-specific DNA binding site [nucleotide binding]; other site 634459008097 salt bridge; other site 634459008098 sequence-specific DNA binding site [nucleotide binding]; other site 634459008099 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 634459008100 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 634459008101 P-loop; other site 634459008102 Magnesium ion binding site [ion binding]; other site 634459008103 Conjugal transfer protein TraD; Region: TraD; pfam06412 634459008104 MobA/MobL family; Region: MobA_MobL; pfam03389 634459008105 Helix-turn-helix domain; Region: HTH_36; pfam13730 634459008106 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 634459008107 Transposase; Region: HTH_Tnp_1; pfam01527 634459008108 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 634459008109 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 634459008110 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634459008111 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 634459008112 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 634459008113 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634459008114 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 634459008115 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 634459008116 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 634459008117 catalytic residues [active] 634459008118 catalytic nucleophile [active] 634459008119 Presynaptic Site I dimer interface [polypeptide binding]; other site 634459008120 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634459008121 Synaptic Flat tetramer interface [polypeptide binding]; other site 634459008122 Synaptic Site I dimer interface [polypeptide binding]; other site 634459008123 DDE superfamily endonuclease; Region: DDE_4; cl17710 634459008124 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 634459008125 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 634459008126 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 634459008127 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 634459008128 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 634459008129 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 634459008130 motif II; other site 634459008131 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 634459008132 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634459008133 Walker A/P-loop; other site 634459008134 ATP binding site [chemical binding]; other site 634459008135 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 634459008136 AAA domain; Region: AAA_12; pfam13087 634459008137 C-terminal domain of Escherichia coli uncharacterized protein yjhR and similar proteins; Region: PLDc_yjhR_C_like; cd09118 634459008138 PLD-like domain; Region: PLDc_2; pfam13091 634459008139 putative active site [active] 634459008140 catalytic site [active] 634459008141 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459008142 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459008143 Domain Homologous to E6-AP Carboxyl Terminus with; Region: HECTc; smart00119 634459008144 Transposase; Region: HTH_Tnp_1; pfam01527 634459008145 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 634459008146 HTH-like domain; Region: HTH_21; pfam13276 634459008147 Integrase core domain; Region: rve; pfam00665 634459008148 Integrase core domain; Region: rve_3; pfam13683 634459008149 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 634459008150 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 634459008151 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459008152 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 634459008153 DNA binding site [nucleotide binding] 634459008154 Int/Topo IB signature motif; other site 634459008155 active site 634459008156 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 634459008157 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 634459008158 non-specific DNA binding site [nucleotide binding]; other site 634459008159 salt bridge; other site 634459008160 sequence-specific DNA binding site [nucleotide binding]; other site 634459008161 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 634459008162 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 634459008163 P-loop; other site 634459008164 Magnesium ion binding site [ion binding]; other site 634459008165 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 634459008166 Magnesium ion binding site [ion binding]; other site 634459008167 ParB-like nuclease domain; Region: ParBc; pfam02195 634459008168 KorB domain; Region: KorB; pfam08535 634459008169 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 634459008170 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 634459008171 S-adenosylmethionine binding site [chemical binding]; other site 634459008172 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 634459008173 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 634459008174 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459008175 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 634459008176 IHF dimer interface [polypeptide binding]; other site 634459008177 IHF - DNA interface [nucleotide binding]; other site 634459008178 TrwC relaxase; Region: TrwC; pfam08751 634459008179 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459008180 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459008181 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459008182 Transposase domain (DUF772); Region: DUF772; pfam05598 634459008183 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634459008184 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634459008185 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 634459008186 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 634459008187 dimer interface [polypeptide binding]; other site 634459008188 active site 634459008189 metal binding site [ion binding]; metal-binding site 634459008190 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634459008191 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 634459008192 NAD(P) binding site [chemical binding]; other site 634459008193 catalytic residues [active] 634459008194 Integrase core domain; Region: rve; pfam00665 634459008195 Winged helix-turn helix; Region: HTH_29; pfam13551 634459008196 Integrase core domain; Region: rve; pfam00665 634459008197 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634459008198 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 634459008199 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 634459008200 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 634459008201 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 634459008202 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 634459008203 Soluble P-type ATPase [General function prediction only]; Region: COG4087 634459008204 potassium-transporting ATPase subunit C; Provisional; Region: PRK13999 634459008205 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 634459008206 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 634459008207 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 634459008208 Ligand Binding Site [chemical binding]; other site 634459008209 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 634459008210 GAF domain; Region: GAF_3; pfam13492 634459008211 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 634459008212 dimer interface [polypeptide binding]; other site 634459008213 phosphorylation site [posttranslational modification] 634459008214 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 634459008215 ATP binding site [chemical binding]; other site 634459008216 Mg2+ binding site [ion binding]; other site 634459008217 G-X-G motif; other site 634459008218 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634459008219 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 634459008220 active site 634459008221 phosphorylation site [posttranslational modification] 634459008222 intermolecular recognition site; other site 634459008223 dimerization interface [polypeptide binding]; other site 634459008224 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 634459008225 DNA binding site [nucleotide binding] 634459008226 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 634459008227 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459008228 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 634459008229 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634459008230 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 634459008231 Acyltransferase family; Region: Acyl_transf_3; pfam01757 634459008232 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 634459008233 Fic/DOC family; Region: Fic; cl00960 634459008234 Replication protein C N-terminal domain; Region: RP-C; pfam03428 634459008235 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 634459008236 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459008237 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634459008238 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 634459008239 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 634459008240 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 634459008241 active site 634459008242 catalytic site [active] 634459008243 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 634459008244 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634459008245 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 634459008246 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634459008247 CrcB-like protein; Region: CRCB; cl09114 634459008248 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459008249 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 634459008250 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459008251 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459008252 Transposase domain (DUF772); Region: DUF772; pfam05598 634459008253 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 634459008254 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 634459008255 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 634459008256 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459008257 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634459008258 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459008259 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459008260 manganese transport protein MntH; Reviewed; Region: PRK00701 634459008261 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 634459008262 manganese transport regulator MntR; Provisional; Region: PRK11050 634459008263 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 634459008264 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 634459008265 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 634459008266 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 634459008267 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 634459008268 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634459008269 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 634459008270 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 634459008271 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 634459008272 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 634459008273 iron-sulfur cluster [ion binding]; other site 634459008274 [2Fe-2S] cluster binding site [ion binding]; other site 634459008275 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459008276 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 634459008277 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459008278 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634459008279 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634459008280 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634459008281 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459008282 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634459008283 putative transposase OrfB; Reviewed; Region: PHA02517 634459008284 HTH-like domain; Region: HTH_21; pfam13276 634459008285 Integrase core domain; Region: rve; pfam00665 634459008286 Integrase core domain; Region: rve_3; pfam13683 634459008287 Transposase; Region: HTH_Tnp_1; cl17663 634459008288 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 634459008289 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 634459008290 Transposase domain (DUF772); Region: DUF772; pfam05598 634459008291 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459008292 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 634459008293 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 634459008294 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 634459008295 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 634459008296 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 634459008297 CRISPR-associated protein Cse2 (CRISPR_cse2); Region: CRISPR_Cse2; pfam09485 634459008298 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 634459008299 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 634459008300 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cd09693 634459008301 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 634459008302 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 634459008303 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 634459008304 Winged helix-turn helix; Region: HTH_29; pfam13551 634459008305 Integrase core domain; Region: rve; pfam00665 634459008306 Integrase core domain; Region: rve_3; pfam13683 634459008307 Predicted transcriptional regulator [Transcription]; Region: COG4190 634459008308 Abi-like protein; Region: Abi_2; pfam07751 634459008309 putative transposase OrfB; Reviewed; Region: PHA02517 634459008310 HTH-like domain; Region: HTH_21; pfam13276 634459008311 Integrase core domain; Region: rve; pfam00665 634459008312 Integrase core domain; Region: rve_3; pfam13683 634459008313 Transposase; Region: HTH_Tnp_1; cl17663 634459008314 Predicted membrane protein [Function unknown]; Region: COG3431 634459008315 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459008316 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 634459008317 apolar tunnel; other site 634459008318 heme binding site [chemical binding]; other site 634459008319 dimerization interface [polypeptide binding]; other site 634459008320 Domain of unknown function (DUF1971); Region: DUF1971; pfam09313 634459008321 Transposase domain (DUF772); Region: DUF772; pfam05598 634459008322 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459008323 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 634459008324 HTH-like domain; Region: HTH_21; pfam13276 634459008325 Integrase core domain; Region: rve; pfam00665 634459008326 Integrase core domain; Region: rve_3; pfam13683 634459008327 Transposase; Region: HTH_Tnp_1; pfam01527 634459008328 bifunctional antitoxin/transcriptional repressor RelB; Provisional; Region: PRK11235 634459008329 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 634459008330 Abi-like protein; Region: Abi_2; cl01988 634459008331 myosin-cross-reactive antigen; Provisional; Region: PRK13977 634459008332 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459008333 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 634459008334 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459008335 Transposase domain (DUF772); Region: DUF772; pfam05598 634459008336 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 634459008337 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459008338 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 634459008339 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 634459008340 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 634459008341 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634459008342 Transposase domain (DUF772); Region: DUF772; pfam05598 634459008343 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459008344 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 634459008345 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 634459008346 IHF dimer interface [polypeptide binding]; other site 634459008347 IHF - DNA interface [nucleotide binding]; other site 634459008348 putative transposase OrfB; Reviewed; Region: PHA02517 634459008349 HTH-like domain; Region: HTH_21; pfam13276 634459008350 Integrase core domain; Region: rve; pfam00665 634459008351 Integrase core domain; Region: rve_3; pfam13683 634459008352 Transposase; Region: HTH_Tnp_1; cl17663 634459008353 PemK-like protein; Region: PemK; cl00995 634459008354 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 634459008355 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 634459008356 oligomeric interface; other site 634459008357 putative active site [active] 634459008358 homodimer interface [polypeptide binding]; other site 634459008359 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 634459008360 Integrase core domain; Region: rve_3; pfam13683 634459008361 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459008362 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 634459008363 DNA-binding interface [nucleotide binding]; DNA binding site 634459008364 hypothetical protein; Provisional; Region: PRK10621 634459008365 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 634459008366 DDE superfamily endonuclease; Region: DDE_5; pfam13546 634459008367 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459008368 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634459008369 active site 634459008370 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 634459008371 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 634459008372 acyl-activating enzyme (AAE) consensus motif; other site 634459008373 AMP binding site [chemical binding]; other site 634459008374 active site 634459008375 CoA binding site [chemical binding]; other site 634459008376 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 634459008377 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634459008378 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 634459008379 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 634459008380 AIR synthase-related protein, sll0787 family; Region: AIR_rel_sll0787; TIGR04049 634459008381 AIR synthase (PurM) related protein, subgroup 3 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like3; cd02192 634459008382 dimerization interface [polypeptide binding]; other site 634459008383 putative ATP binding site [chemical binding]; other site 634459008384 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634459008385 Coenzyme A binding pocket [chemical binding]; other site 634459008386 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 634459008387 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 634459008388 FeS/SAM binding site; other site 634459008389 Predicted amidohydrolase [General function prediction only]; Region: COG0388 634459008390 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 634459008391 putative active site [active] 634459008392 catalytic triad [active] 634459008393 putative dimer interface [polypeptide binding]; other site 634459008394 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 634459008395 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 634459008396 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 634459008397 DNA-binding site [nucleotide binding]; DNA binding site 634459008398 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 634459008399 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634459008400 homodimer interface [polypeptide binding]; other site 634459008401 catalytic residue [active] 634459008402 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 634459008403 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634459008404 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634459008405 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 634459008406 dimerization interface [polypeptide binding]; other site 634459008407 substrate binding pocket [chemical binding]; other site 634459008408 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 634459008409 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 634459008410 putative substrate translocation pore; other site 634459008411 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 634459008412 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459008413 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634459008414 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 634459008415 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 634459008416 AAA domain; Region: AAA_30; pfam13604 634459008417 Family description; Region: UvrD_C_2; pfam13538 634459008418 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 634459008419 active site 634459008420 catalytic residues [active] 634459008421 DNA binding site [nucleotide binding] 634459008422 Int/Topo IB signature motif; other site 634459008423 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634459008424 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586