-- dump date 20140618_183641 -- class Genbank::misc_feature -- table misc_feature_note -- id note 634453000001 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 634453000002 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 634453000003 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 634453000004 active site 634453000005 Int/Topo IB signature motif; other site 634453000006 hypothetical protein; Validated; Region: PRK00124 634453000007 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 634453000008 dimer interface [polypeptide binding]; other site 634453000009 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 634453000010 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 634453000011 putative substrate translocation pore; other site 634453000012 Uncharacterized conserved protein [Function unknown]; Region: COG2835 634453000013 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 634453000014 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 634453000015 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 634453000016 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 634453000017 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 634453000018 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 634453000019 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 634453000020 Creatinine amidohydrolase; Region: Creatininase; pfam02633 634453000021 Uncharacterized conserved protein [Function unknown]; Region: COG3391 634453000022 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 634453000023 AAA ATPase domain; Region: AAA_16; pfam13191 634453000024 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 634453000025 Uncharacterized conserved protein [Function unknown]; Region: COG3410 634453000026 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 634453000027 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 634453000028 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 634453000029 putative FMN binding site [chemical binding]; other site 634453000030 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 634453000031 Glycoprotease family; Region: Peptidase_M22; pfam00814 634453000032 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634453000033 Coenzyme A binding pocket [chemical binding]; other site 634453000034 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 634453000035 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 634453000036 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 634453000037 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 634453000038 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 634453000039 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 634453000040 generic binding surface II; other site 634453000041 generic binding surface I; other site 634453000042 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 634453000043 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634453000044 catalytic residue [active] 634453000045 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634453000046 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 634453000047 NAD(P) binding site [chemical binding]; other site 634453000048 catalytic residues [active] 634453000049 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 634453000050 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 634453000051 NAD binding site [chemical binding]; other site 634453000052 substrate binding site [chemical binding]; other site 634453000053 catalytic Zn binding site [ion binding]; other site 634453000054 tetramer interface [polypeptide binding]; other site 634453000055 structural Zn binding site [ion binding]; other site 634453000056 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 634453000057 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 634453000058 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 634453000059 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 634453000060 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 634453000061 ligand binding site [chemical binding]; other site 634453000062 homodimer interface [polypeptide binding]; other site 634453000063 NAD(P) binding site [chemical binding]; other site 634453000064 trimer interface B [polypeptide binding]; other site 634453000065 trimer interface A [polypeptide binding]; other site 634453000066 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 634453000067 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 634453000068 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 634453000069 Iron-sulfur protein interface; other site 634453000070 proximal quinone binding site [chemical binding]; other site 634453000071 SdhD (CybS) interface [polypeptide binding]; other site 634453000072 proximal heme binding site [chemical binding]; other site 634453000073 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 634453000074 putative SdhC subunit interface [polypeptide binding]; other site 634453000075 putative proximal heme binding site [chemical binding]; other site 634453000076 putative Iron-sulfur protein interface [polypeptide binding]; other site 634453000077 putative proximal quinone binding site; other site 634453000078 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 634453000079 L-aspartate oxidase; Provisional; Region: PRK06175 634453000080 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 634453000081 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 634453000082 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 634453000083 Putative phosphatase (DUF442); Region: DUF442; cl17385 634453000084 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 634453000085 EamA-like transporter family; Region: EamA; pfam00892 634453000086 Phosphoglycerate kinase; Region: PGK; pfam00162 634453000087 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 634453000088 substrate binding site [chemical binding]; other site 634453000089 hinge regions; other site 634453000090 ADP binding site [chemical binding]; other site 634453000091 catalytic site [active] 634453000092 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 634453000093 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 634453000094 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 634453000095 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 634453000096 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 634453000097 TPP-binding site [chemical binding]; other site 634453000098 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 634453000099 PYR/PP interface [polypeptide binding]; other site 634453000100 dimer interface [polypeptide binding]; other site 634453000101 TPP binding site [chemical binding]; other site 634453000102 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634453000103 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 634453000104 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 634453000105 substrate-cofactor binding pocket; other site 634453000106 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453000107 catalytic residue [active] 634453000108 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 634453000109 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 634453000110 catalytic residues [active] 634453000111 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 634453000112 recombinase A; Provisional; Region: recA; PRK09354 634453000113 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 634453000114 hexamer interface [polypeptide binding]; other site 634453000115 Walker A motif; other site 634453000116 ATP binding site [chemical binding]; other site 634453000117 Walker B motif; other site 634453000118 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 634453000119 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634453000120 Coenzyme A binding pocket [chemical binding]; other site 634453000121 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 634453000122 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 634453000123 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 634453000124 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 634453000125 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 634453000126 Ligand binding site; other site 634453000127 DXD motif; other site 634453000128 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 634453000129 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 634453000130 active site 634453000131 dimer interface [polypeptide binding]; other site 634453000132 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 634453000133 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 634453000134 putative substrate translocation pore; other site 634453000135 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 634453000136 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 634453000137 Walker A motif; other site 634453000138 ATP binding site [chemical binding]; other site 634453000139 Walker B motif; other site 634453000140 arginine finger; other site 634453000141 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 634453000142 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 634453000143 hypothetical protein; Validated; Region: PRK00153 634453000144 recombination protein RecR; Reviewed; Region: recR; PRK00076 634453000145 RecR protein; Region: RecR; pfam02132 634453000146 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 634453000147 putative active site [active] 634453000148 putative metal-binding site [ion binding]; other site 634453000149 tetramer interface [polypeptide binding]; other site 634453000150 short chain dehydrogenase; Provisional; Region: PRK09134 634453000151 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634453000152 NAD(P) binding site [chemical binding]; other site 634453000153 active site 634453000154 Dihydroneopterin aldolase; Region: FolB; pfam02152 634453000155 active site 634453000156 TIGR02300 family protein; Region: FYDLN_acid 634453000157 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 634453000158 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 634453000159 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 634453000160 hinge; other site 634453000161 active site 634453000162 cytidylate kinase; Provisional; Region: cmk; PRK00023 634453000163 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 634453000164 CMP-binding site; other site 634453000165 The sites determining sugar specificity; other site 634453000166 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 634453000167 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 634453000168 RNA binding site [nucleotide binding]; other site 634453000169 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 634453000170 RNA binding site [nucleotide binding]; other site 634453000171 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 634453000172 RNA binding site [nucleotide binding]; other site 634453000173 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 634453000174 RNA binding site [nucleotide binding]; other site 634453000175 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 634453000176 RNA binding site [nucleotide binding]; other site 634453000177 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 634453000178 RNA binding site [nucleotide binding]; other site 634453000179 Major royal jelly protein; Region: MRJP; pfam03022 634453000180 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 634453000181 active site 634453000182 dimerization interface [polypeptide binding]; other site 634453000183 ribonuclease PH; Reviewed; Region: rph; PRK00173 634453000184 Ribonuclease PH; Region: RNase_PH_bact; cd11362 634453000185 hexamer interface [polypeptide binding]; other site 634453000186 active site 634453000187 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 634453000188 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 634453000189 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 634453000190 Transglycosylase; Region: Transgly; pfam00912 634453000191 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 634453000192 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 634453000193 This domain is found in peptide chain release factors; Region: PCRF; smart00937 634453000194 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 634453000195 RF-1 domain; Region: RF-1; pfam00472 634453000196 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634453000197 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 634453000198 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634453000199 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 634453000200 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634453000201 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 634453000202 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 634453000203 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 634453000204 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 634453000205 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 634453000206 rod shape-determining protein MreC; Provisional; Region: PRK13922 634453000207 rod shape-determining protein MreC; Region: MreC; pfam04085 634453000208 rod shape-determining protein MreB; Provisional; Region: PRK13927 634453000209 MreB and similar proteins; Region: MreB_like; cd10225 634453000210 nucleotide binding site [chemical binding]; other site 634453000211 Mg binding site [ion binding]; other site 634453000212 putative protofilament interaction site [polypeptide binding]; other site 634453000213 RodZ interaction site [polypeptide binding]; other site 634453000214 2-isopropylmalate synthase; Validated; Region: PRK00915 634453000215 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 634453000216 active site 634453000217 catalytic residues [active] 634453000218 metal binding site [ion binding]; metal-binding site 634453000219 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 634453000220 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 634453000221 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 634453000222 Uncharacterized conserved protein [Function unknown]; Region: COG0398 634453000223 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 634453000224 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 634453000225 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 634453000226 putative substrate translocation pore; other site 634453000227 PAS fold; Region: PAS_7; pfam12860 634453000228 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634453000229 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 634453000230 dimer interface [polypeptide binding]; other site 634453000231 phosphorylation site [posttranslational modification] 634453000232 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 634453000233 ATP binding site [chemical binding]; other site 634453000234 Mg2+ binding site [ion binding]; other site 634453000235 G-X-G motif; other site 634453000236 Response regulator receiver domain; Region: Response_reg; pfam00072 634453000237 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 634453000238 active site 634453000239 phosphorylation site [posttranslational modification] 634453000240 intermolecular recognition site; other site 634453000241 dimerization interface [polypeptide binding]; other site 634453000242 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634453000243 active site 634453000244 Fusaric acid resistance protein family; Region: FUSC; pfam04632 634453000245 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634453000246 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 634453000247 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 634453000248 MOFRL family; Region: MOFRL; pfam05161 634453000249 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 634453000250 ligand binding site [chemical binding]; other site 634453000251 active site 634453000252 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634453000253 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634453000254 Cytochrome c; Region: Cytochrom_C; pfam00034 634453000255 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 634453000256 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 634453000257 Trp docking motif [polypeptide binding]; other site 634453000258 cytochrome domain interface [polypeptide binding]; other site 634453000259 active site 634453000260 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634453000261 Cytochrome c; Region: Cytochrom_C; pfam00034 634453000262 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 634453000263 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 634453000264 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 634453000265 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 634453000266 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 634453000267 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 634453000268 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 634453000269 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 634453000270 D-pathway; other site 634453000271 Putative ubiquinol binding site [chemical binding]; other site 634453000272 Low-spin heme (heme b) binding site [chemical binding]; other site 634453000273 Putative water exit pathway; other site 634453000274 Binuclear center (heme o3/CuB) [ion binding]; other site 634453000275 K-pathway; other site 634453000276 Putative proton exit pathway; other site 634453000277 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 634453000278 Subunit I/III interface [polypeptide binding]; other site 634453000279 Subunit III/IV interface [polypeptide binding]; other site 634453000280 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 634453000281 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 634453000282 4Fe-4S binding domain; Region: Fer4; pfam00037 634453000283 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 634453000284 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 634453000285 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 634453000286 nucleotide binding region [chemical binding]; other site 634453000287 ATP-binding site [chemical binding]; other site 634453000288 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 634453000289 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 634453000290 interface (dimer of trimers) [polypeptide binding]; other site 634453000291 Substrate-binding/catalytic site; other site 634453000292 Zn-binding sites [ion binding]; other site 634453000293 MarR family; Region: MarR; pfam01047 634453000294 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 634453000295 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 634453000296 Mg++ binding site [ion binding]; other site 634453000297 putative catalytic motif [active] 634453000298 putative substrate binding site [chemical binding]; other site 634453000299 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 634453000300 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 634453000301 NAD(P) binding site [chemical binding]; other site 634453000302 homodimer interface [polypeptide binding]; other site 634453000303 substrate binding site [chemical binding]; other site 634453000304 active site 634453000305 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 634453000306 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 634453000307 inhibitor-cofactor binding pocket; inhibition site 634453000308 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453000309 catalytic residue [active] 634453000310 dihydroorotase; Validated; Region: PRK09060 634453000311 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 634453000312 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 634453000313 active site 634453000314 glutathione reductase; Validated; Region: PRK06116 634453000315 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634453000316 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634453000317 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 634453000318 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 634453000319 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 634453000320 FAD binding pocket [chemical binding]; other site 634453000321 FAD binding motif [chemical binding]; other site 634453000322 phosphate binding motif [ion binding]; other site 634453000323 beta-alpha-beta structure motif; other site 634453000324 NAD binding pocket [chemical binding]; other site 634453000325 DEAD-like helicases superfamily; Region: DEXDc; smart00487 634453000326 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 634453000327 ATP binding site [chemical binding]; other site 634453000328 putative Mg++ binding site [ion binding]; other site 634453000329 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 634453000330 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 634453000331 nucleotide binding region [chemical binding]; other site 634453000332 ATP-binding site [chemical binding]; other site 634453000333 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 634453000334 short chain dehydrogenase; Provisional; Region: PRK06197 634453000335 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634453000336 NAD(P) binding site [chemical binding]; other site 634453000337 active site 634453000338 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 634453000339 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 634453000340 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 634453000341 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 634453000342 malate dehydrogenase; Provisional; Region: PRK13529 634453000343 Malic enzyme, N-terminal domain; Region: malic; pfam00390 634453000344 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 634453000345 NAD(P) binding site [chemical binding]; other site 634453000346 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 634453000347 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 634453000348 putative homodimer interface [polypeptide binding]; other site 634453000349 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 634453000350 heterodimer interface [polypeptide binding]; other site 634453000351 homodimer interface [polypeptide binding]; other site 634453000352 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 634453000353 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; COG0712 634453000354 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 634453000355 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 634453000356 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 634453000357 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 634453000358 beta subunit interaction interface [polypeptide binding]; other site 634453000359 Walker A motif; other site 634453000360 ATP binding site [chemical binding]; other site 634453000361 Walker B motif; other site 634453000362 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 634453000363 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 634453000364 core domain interface [polypeptide binding]; other site 634453000365 delta subunit interface [polypeptide binding]; other site 634453000366 epsilon subunit interface [polypeptide binding]; other site 634453000367 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 634453000368 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 634453000369 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 634453000370 alpha subunit interaction interface [polypeptide binding]; other site 634453000371 Walker A motif; other site 634453000372 ATP binding site [chemical binding]; other site 634453000373 Walker B motif; other site 634453000374 inhibitor binding site; inhibition site 634453000375 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 634453000376 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 634453000377 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 634453000378 gamma subunit interface [polypeptide binding]; other site 634453000379 epsilon subunit interface [polypeptide binding]; other site 634453000380 LBP interface [polypeptide binding]; other site 634453000381 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 634453000382 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 634453000383 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 634453000384 catalytic site [active] 634453000385 putative active site [active] 634453000386 putative substrate binding site [chemical binding]; other site 634453000387 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 634453000388 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 634453000389 substrate binding site [chemical binding]; other site 634453000390 ATP binding site [chemical binding]; other site 634453000391 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 634453000392 GcrA cell cycle regulator; Region: GcrA; cl11564 634453000393 GcrA cell cycle regulator; Region: GcrA; cl11564 634453000394 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 634453000395 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 634453000396 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453000397 Walker A/P-loop; other site 634453000398 ATP binding site [chemical binding]; other site 634453000399 Q-loop/lid; other site 634453000400 ABC transporter signature motif; other site 634453000401 Walker B; other site 634453000402 D-loop; other site 634453000403 H-loop/switch region; other site 634453000404 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 634453000405 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 634453000406 dimer interface [polypeptide binding]; other site 634453000407 conserved gate region; other site 634453000408 putative PBP binding loops; other site 634453000409 ABC-ATPase subunit interface; other site 634453000410 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 634453000411 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 634453000412 dimer interface [polypeptide binding]; other site 634453000413 conserved gate region; other site 634453000414 putative PBP binding loops; other site 634453000415 ABC-ATPase subunit interface; other site 634453000416 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453000417 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 634453000418 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 634453000419 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 634453000420 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 634453000421 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 634453000422 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634453000423 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 634453000424 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 634453000425 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 634453000426 ethanolamine permease; Region: 2A0305; TIGR00908 634453000427 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 634453000428 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634453000429 HlyD family secretion protein; Region: HlyD_3; pfam13437 634453000430 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 634453000431 Protein export membrane protein; Region: SecD_SecF; cl14618 634453000432 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 634453000433 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 634453000434 DNA-binding site [nucleotide binding]; DNA binding site 634453000435 RNA-binding motif; other site 634453000436 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453000437 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453000438 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634453000439 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 634453000440 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 634453000441 N-terminal plug; other site 634453000442 ligand-binding site [chemical binding]; other site 634453000443 hypothetical protein; Provisional; Region: PRK09945 634453000444 Hint domain; Region: Hint_2; pfam13403 634453000445 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 634453000446 formamidase; Provisional; Region: amiF; PRK13287 634453000447 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 634453000448 multimer interface [polypeptide binding]; other site 634453000449 active site 634453000450 catalytic triad [active] 634453000451 dimer interface [polypeptide binding]; other site 634453000452 Response regulator receiver domain; Region: Response_reg; pfam00072 634453000453 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 634453000454 active site 634453000455 phosphorylation site [posttranslational modification] 634453000456 intermolecular recognition site; other site 634453000457 dimerization interface [polypeptide binding]; other site 634453000458 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 634453000459 DNA binding residues [nucleotide binding] 634453000460 dimerization interface [polypeptide binding]; other site 634453000461 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 634453000462 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634453000463 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 634453000464 dimer interface [polypeptide binding]; other site 634453000465 phosphorylation site [posttranslational modification] 634453000466 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 634453000467 ATP binding site [chemical binding]; other site 634453000468 Mg2+ binding site [ion binding]; other site 634453000469 G-X-G motif; other site 634453000470 Response regulator receiver domain; Region: Response_reg; pfam00072 634453000471 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 634453000472 active site 634453000473 phosphorylation site [posttranslational modification] 634453000474 intermolecular recognition site; other site 634453000475 dimerization interface [polypeptide binding]; other site 634453000476 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 634453000477 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 634453000478 putative ligand binding site [chemical binding]; other site 634453000479 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 634453000480 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 634453000481 TM-ABC transporter signature motif; other site 634453000482 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 634453000483 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 634453000484 TM-ABC transporter signature motif; other site 634453000485 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 634453000486 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 634453000487 Walker A/P-loop; other site 634453000488 ATP binding site [chemical binding]; other site 634453000489 Q-loop/lid; other site 634453000490 ABC transporter signature motif; other site 634453000491 Walker B; other site 634453000492 D-loop; other site 634453000493 H-loop/switch region; other site 634453000494 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 634453000495 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 634453000496 Walker A/P-loop; other site 634453000497 ATP binding site [chemical binding]; other site 634453000498 Q-loop/lid; other site 634453000499 ABC transporter signature motif; other site 634453000500 Walker B; other site 634453000501 D-loop; other site 634453000502 H-loop/switch region; other site 634453000503 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 634453000504 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 634453000505 Predicted transcriptional regulator [Transcription]; Region: COG2378 634453000506 WYL domain; Region: WYL; pfam13280 634453000507 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 634453000508 active site 634453000509 Int/Topo IB signature motif; other site 634453000510 DNA binding site [nucleotide binding] 634453000511 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453000512 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 634453000513 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453000514 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 634453000515 active site 634453000516 Catalytic domain of Protein Kinases; Region: PKc; cd00180 634453000517 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 634453000518 active site 634453000519 ATP binding site [chemical binding]; other site 634453000520 substrate binding site [chemical binding]; other site 634453000521 activation loop (A-loop); other site 634453000522 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 634453000523 Catalytic domain of Protein Kinases; Region: PKc; cd00180 634453000524 active site 634453000525 ATP binding site [chemical binding]; other site 634453000526 substrate binding site [chemical binding]; other site 634453000527 activation loop (A-loop); other site 634453000528 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 634453000529 active site 634453000530 Int/Topo IB signature motif; other site 634453000531 DNA binding site [nucleotide binding] 634453000532 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 634453000533 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634453000534 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 634453000535 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 634453000536 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 634453000537 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 634453000538 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634453000539 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634453000540 Transposase; Region: HTH_Tnp_1; pfam01527 634453000541 Protein of unknown function DUF45; Region: DUF45; pfam01863 634453000542 hypothetical protein; Provisional; Region: PRK05170 634453000543 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 634453000544 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 634453000545 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453000546 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 634453000547 Walker A/P-loop; other site 634453000548 ATP binding site [chemical binding]; other site 634453000549 Q-loop/lid; other site 634453000550 ABC transporter signature motif; other site 634453000551 Walker B; other site 634453000552 D-loop; other site 634453000553 H-loop/switch region; other site 634453000554 TOBE domain; Region: TOBE_2; pfam08402 634453000555 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 634453000556 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 634453000557 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 634453000558 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 634453000559 multidrug resistance protein MdtN; Provisional; Region: PRK10476 634453000560 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634453000561 HlyD family secretion protein; Region: HlyD_3; pfam13437 634453000562 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 634453000563 hopanoid-associated phosphorylase; Region: HpnG; TIGR03468 634453000564 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 634453000565 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 634453000566 Active site cavity [active] 634453000567 catalytic acid [active] 634453000568 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 634453000569 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 634453000570 active site lid residues [active] 634453000571 substrate binding pocket [chemical binding]; other site 634453000572 catalytic residues [active] 634453000573 substrate-Mg2+ binding site; other site 634453000574 aspartate-rich region 1; other site 634453000575 aspartate-rich region 2; other site 634453000576 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 634453000577 active site lid residues [active] 634453000578 substrate binding pocket [chemical binding]; other site 634453000579 catalytic residues [active] 634453000580 substrate-Mg2+ binding site; other site 634453000581 aspartate-rich region 1; other site 634453000582 aspartate-rich region 2; other site 634453000583 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 634453000584 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 634453000585 active site 634453000586 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 634453000587 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 634453000588 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 634453000589 putative NADP binding site [chemical binding]; other site 634453000590 putative substrate binding site [chemical binding]; other site 634453000591 active site 634453000592 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 634453000593 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 634453000594 prephenate dehydrogenase; Validated; Region: PRK08507 634453000595 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 634453000596 TPR motif; other site 634453000597 TPR repeat; Region: TPR_11; pfam13414 634453000598 binding surface 634453000599 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634453000600 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453000601 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 634453000602 dimerization interface [polypeptide binding]; other site 634453000603 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 634453000604 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 634453000605 dimer interface [polypeptide binding]; other site 634453000606 decamer (pentamer of dimers) interface [polypeptide binding]; other site 634453000607 catalytic triad [active] 634453000608 peroxidatic and resolving cysteines [active] 634453000609 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 634453000610 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 634453000611 Uncharacterized conserved protein [Function unknown]; Region: COG2353 634453000612 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 634453000613 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 634453000614 putative active site [active] 634453000615 metal binding site [ion binding]; metal-binding site 634453000616 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 634453000617 dimer interface [polypeptide binding]; other site 634453000618 substrate binding site [chemical binding]; other site 634453000619 metal binding sites [ion binding]; metal-binding site 634453000620 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 634453000621 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453000622 Walker A/P-loop; other site 634453000623 ATP binding site [chemical binding]; other site 634453000624 Q-loop/lid; other site 634453000625 ABC transporter signature motif; other site 634453000626 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634453000627 ABC transporter; Region: ABC_tran_2; pfam12848 634453000628 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634453000629 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 634453000630 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 634453000631 Coenzyme A binding pocket [chemical binding]; other site 634453000632 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 634453000633 VacJ like lipoprotein; Region: VacJ; cl01073 634453000634 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 634453000635 putative metal binding site [ion binding]; other site 634453000636 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 634453000637 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 634453000638 HSP70 interaction site [polypeptide binding]; other site 634453000639 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 634453000640 epoxyqueuosine reductase; Region: TIGR00276 634453000641 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 634453000642 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 634453000643 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 634453000644 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 634453000645 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 634453000646 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 634453000647 substrate binding site [chemical binding]; other site 634453000648 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 634453000649 FAD binding site [chemical binding]; other site 634453000650 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 634453000651 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 634453000652 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 634453000653 homodimer interface [polypeptide binding]; other site 634453000654 NADP binding site [chemical binding]; other site 634453000655 substrate binding site [chemical binding]; other site 634453000656 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 634453000657 Protein of unknown function, DUF482; Region: DUF482; pfam04339 634453000658 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 634453000659 homotrimer interaction site [polypeptide binding]; other site 634453000660 putative active site [active] 634453000661 TSCPD domain; Region: TSCPD; pfam12637 634453000662 NADH dehydrogenase; Validated; Region: PRK08183 634453000663 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 634453000664 mce related protein; Region: MCE; pfam02470 634453000665 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 634453000666 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 634453000667 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 634453000668 active site 634453000669 motif I; other site 634453000670 motif II; other site 634453000671 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 634453000672 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 634453000673 active site 634453000674 homotetramer interface [polypeptide binding]; other site 634453000675 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 634453000676 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 634453000677 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 634453000678 Probable Catalytic site; other site 634453000679 metal-binding site 634453000680 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634453000681 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 634453000682 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 634453000683 nudix motif; other site 634453000684 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 634453000685 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 634453000686 active site 634453000687 catalytic tetrad [active] 634453000688 Helix-turn-helix domain; Region: HTH_17; pfam12728 634453000689 excinuclease ABC subunit B; Provisional; Region: PRK05298 634453000690 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 634453000691 ATP binding site [chemical binding]; other site 634453000692 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 634453000693 nucleotide binding region [chemical binding]; other site 634453000694 ATP-binding site [chemical binding]; other site 634453000695 Ultra-violet resistance protein B; Region: UvrB; pfam12344 634453000696 UvrB/uvrC motif; Region: UVR; pfam02151 634453000697 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 634453000698 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 634453000699 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 634453000700 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 634453000701 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 634453000702 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 634453000703 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 634453000704 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 634453000705 active site 634453000706 motif I; other site 634453000707 motif II; other site 634453000708 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 634453000709 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 634453000710 active site 634453000711 L-asparagine permease; Provisional; Region: PRK15049 634453000712 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 634453000713 active site 634453000714 DNA polymerase IV; Validated; Region: PRK02406 634453000715 DNA binding site [nucleotide binding] 634453000716 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 634453000717 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 634453000718 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 634453000719 quinone interaction residues [chemical binding]; other site 634453000720 active site 634453000721 catalytic residues [active] 634453000722 FMN binding site [chemical binding]; other site 634453000723 substrate binding site [chemical binding]; other site 634453000724 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 634453000725 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 634453000726 active site 634453000727 motif I; other site 634453000728 motif II; other site 634453000729 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 634453000730 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 634453000731 nudix motif; other site 634453000732 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 634453000733 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 634453000734 putative active site [active] 634453000735 metal binding site [ion binding]; metal-binding site 634453000736 homodimer binding site [polypeptide binding]; other site 634453000737 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 634453000738 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 634453000739 Cell division protein ZapA; Region: ZapA; cl01146 634453000740 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 634453000741 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 634453000742 putative active site; other site 634453000743 catalytic residue [active] 634453000744 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 634453000745 thiamine phosphate binding site [chemical binding]; other site 634453000746 active site 634453000747 pyrophosphate binding site [ion binding]; other site 634453000748 Prophage antirepressor [Transcription]; Region: COG3617 634453000749 BRO family, N-terminal domain; Region: Bro-N; smart01040 634453000750 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 634453000751 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 634453000752 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 634453000753 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453000754 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 634453000755 Transposase; Region: DDE_Tnp_ISL3; pfam01610 634453000756 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453000757 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453000758 Transposase; Region: DDE_Tnp_ISL3; pfam01610 634453000759 Protein of unknown function (DUF2501); Region: DUF2501; cl08197 634453000760 Fasciclin domain; Region: Fasciclin; cl02663 634453000761 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 634453000762 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 634453000763 motif 1; other site 634453000764 dimer interface [polypeptide binding]; other site 634453000765 active site 634453000766 motif 2; other site 634453000767 motif 3; other site 634453000768 Radical SAM superfamily; Region: Radical_SAM; pfam04055 634453000769 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 634453000770 FeS/SAM binding site; other site 634453000771 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 634453000772 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 634453000773 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 634453000774 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 634453000775 active site 634453000776 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 634453000777 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 634453000778 Uncharacterized conserved protein [Function unknown]; Region: COG2127 634453000779 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 634453000780 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 634453000781 Walker A motif; other site 634453000782 ATP binding site [chemical binding]; other site 634453000783 Walker B motif; other site 634453000784 arginine finger; other site 634453000785 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 634453000786 Walker A motif; other site 634453000787 ATP binding site [chemical binding]; other site 634453000788 Walker B motif; other site 634453000789 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 634453000790 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 634453000791 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 634453000792 Putative transcriptional regulator [Transcription]; Region: COG1678 634453000793 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 634453000794 Shikimate kinase; Region: SKI; pfam01202 634453000795 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 634453000796 homotrimer interaction site [polypeptide binding]; other site 634453000797 putative active site [active] 634453000798 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 634453000799 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 634453000800 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634453000801 HAMP domain; Region: HAMP; pfam00672 634453000802 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 634453000803 dimer interface [polypeptide binding]; other site 634453000804 phosphorylation site [posttranslational modification] 634453000805 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 634453000806 ATP binding site [chemical binding]; other site 634453000807 Mg2+ binding site [ion binding]; other site 634453000808 G-X-G motif; other site 634453000809 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634453000810 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 634453000811 active site 634453000812 phosphorylation site [posttranslational modification] 634453000813 intermolecular recognition site; other site 634453000814 dimerization interface [polypeptide binding]; other site 634453000815 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 634453000816 DNA binding site [nucleotide binding] 634453000817 GrpE; Region: GrpE; pfam01025 634453000818 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 634453000819 dimer interface [polypeptide binding]; other site 634453000820 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 634453000821 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 634453000822 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 634453000823 nucleotide binding site [chemical binding]; other site 634453000824 NEF interaction site [polypeptide binding]; other site 634453000825 SBD interface [polypeptide binding]; other site 634453000826 chaperone protein DnaJ; Provisional; Region: PRK10767 634453000827 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 634453000828 HSP70 interaction site [polypeptide binding]; other site 634453000829 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 634453000830 Zn binding sites [ion binding]; other site 634453000831 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 634453000832 dimer interface [polypeptide binding]; other site 634453000833 dihydrodipicolinate reductase; Provisional; Region: PRK00048 634453000834 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 634453000835 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 634453000836 S-adenosylmethionine synthetase; Validated; Region: PRK05250 634453000837 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 634453000838 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 634453000839 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 634453000840 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 634453000841 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 634453000842 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 634453000843 purine monophosphate binding site [chemical binding]; other site 634453000844 dimer interface [polypeptide binding]; other site 634453000845 putative catalytic residues [active] 634453000846 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 634453000847 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 634453000848 EamA-like transporter family; Region: EamA; pfam00892 634453000849 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 634453000850 DALR anticodon binding domain; Region: DALR_1; pfam05746 634453000851 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 634453000852 dimer interface [polypeptide binding]; other site 634453000853 motif 1; other site 634453000854 active site 634453000855 motif 2; other site 634453000856 motif 3; other site 634453000857 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 634453000858 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 634453000859 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 634453000860 non-specific DNA binding site [nucleotide binding]; other site 634453000861 salt bridge; other site 634453000862 sequence-specific DNA binding site [nucleotide binding]; other site 634453000863 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 634453000864 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 634453000865 putative active site [active] 634453000866 catalytic triad [active] 634453000867 putative dimer interface [polypeptide binding]; other site 634453000868 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 634453000869 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 634453000870 metal binding site 2 [ion binding]; metal-binding site 634453000871 putative DNA binding helix; other site 634453000872 metal binding site 1 [ion binding]; metal-binding site 634453000873 dimer interface [polypeptide binding]; other site 634453000874 structural Zn2+ binding site [ion binding]; other site 634453000875 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 634453000876 CPxP motif; other site 634453000877 transcription termination factor Rho; Provisional; Region: rho; PRK09376 634453000878 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 634453000879 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 634453000880 RNA binding site [nucleotide binding]; other site 634453000881 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 634453000882 multimer interface [polypeptide binding]; other site 634453000883 Walker A motif; other site 634453000884 ATP binding site [chemical binding]; other site 634453000885 Walker B motif; other site 634453000886 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 634453000887 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 634453000888 oligomer interface [polypeptide binding]; other site 634453000889 Cl binding site [ion binding]; other site 634453000890 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 634453000891 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 634453000892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453000893 catalytic residue [active] 634453000894 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 634453000895 substrate binding site [chemical binding]; other site 634453000896 active site 634453000897 catalytic residues [active] 634453000898 heterodimer interface [polypeptide binding]; other site 634453000899 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 634453000900 HerA helicase [Replication, recombination, and repair]; Region: COG0433 634453000901 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 634453000902 Walker A motif; other site 634453000903 ATP binding site [chemical binding]; other site 634453000904 Walker B motif; other site 634453000905 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 634453000906 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 634453000907 dimer interface [polypeptide binding]; other site 634453000908 motif 1; other site 634453000909 active site 634453000910 motif 2; other site 634453000911 motif 3; other site 634453000912 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 634453000913 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 634453000914 GDP-binding site [chemical binding]; other site 634453000915 ACT binding site; other site 634453000916 IMP binding site; other site 634453000917 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 634453000918 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 634453000919 active site 634453000920 phosphorylation site [posttranslational modification] 634453000921 intermolecular recognition site; other site 634453000922 dimerization interface [polypeptide binding]; other site 634453000923 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 634453000924 DNA binding site [nucleotide binding] 634453000925 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 634453000926 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 634453000927 dimer interface [polypeptide binding]; other site 634453000928 phosphorylation site [posttranslational modification] 634453000929 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 634453000930 ATP binding site [chemical binding]; other site 634453000931 Mg2+ binding site [ion binding]; other site 634453000932 G-X-G motif; other site 634453000933 PBP superfamily domain; Region: PBP_like_2; cl17296 634453000934 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 634453000935 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 634453000936 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 634453000937 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 634453000938 catalytic core [active] 634453000939 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 634453000940 Domain of unknown function DUF21; Region: DUF21; pfam01595 634453000941 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 634453000942 Transporter associated domain; Region: CorC_HlyC; smart01091 634453000943 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 634453000944 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 634453000945 NADP binding site [chemical binding]; other site 634453000946 dimer interface [polypeptide binding]; other site 634453000947 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 634453000948 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 634453000949 putative active site [active] 634453000950 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634453000951 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 634453000952 Walker A/P-loop; other site 634453000953 ATP binding site [chemical binding]; other site 634453000954 Q-loop/lid; other site 634453000955 ABC transporter signature motif; other site 634453000956 Walker B; other site 634453000957 D-loop; other site 634453000958 H-loop/switch region; other site 634453000959 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 634453000960 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634453000961 HlyD family secretion protein; Region: HlyD_3; pfam13437 634453000962 Hint domain; Region: Hint_2; pfam13403 634453000963 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 634453000964 classical (c) SDRs; Region: SDR_c; cd05233 634453000965 NAD(P) binding site [chemical binding]; other site 634453000966 active site 634453000967 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 634453000968 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 634453000969 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 634453000970 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 634453000971 homodimer interface [polypeptide binding]; other site 634453000972 metal binding site [ion binding]; metal-binding site 634453000973 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 634453000974 homodimer interface [polypeptide binding]; other site 634453000975 active site 634453000976 putative chemical substrate binding site [chemical binding]; other site 634453000977 metal binding site [ion binding]; metal-binding site 634453000978 Protein of unknown function (DUF2501); Region: DUF2501; cl08197 634453000979 heat shock protein 90; Provisional; Region: PRK05218 634453000980 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 634453000981 ATP binding site [chemical binding]; other site 634453000982 Mg2+ binding site [ion binding]; other site 634453000983 G-X-G motif; other site 634453000984 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 634453000985 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 634453000986 DNA binding site [nucleotide binding] 634453000987 active site 634453000988 Int/Topo IB signature motif; other site 634453000989 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 634453000990 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453000991 CotH protein; Region: CotH; pfam08757 634453000992 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 634453000993 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 634453000994 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 634453000995 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 634453000996 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 634453000997 active site 634453000998 substrate binding site [chemical binding]; other site 634453000999 Mg2+ binding site [ion binding]; other site 634453001000 hypothetical protein; Provisional; Region: PRK09272 634453001001 hypothetical protein; Provisional; Region: PRK10316 634453001002 YfdX protein; Region: YfdX; pfam10938 634453001003 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 634453001004 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 634453001005 sequence-specific DNA binding site [nucleotide binding]; other site 634453001006 salt bridge; other site 634453001007 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 634453001008 Domain of unknown function (DUF955); Region: DUF955; pfam06114 634453001009 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 634453001010 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 634453001011 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 634453001012 methylcitrate synthase; Provisional; Region: PRK12351 634453001013 oxalacetate binding site [chemical binding]; other site 634453001014 citrylCoA binding site [chemical binding]; other site 634453001015 coenzyme A binding site [chemical binding]; other site 634453001016 catalytic triad [active] 634453001017 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 634453001018 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 634453001019 tetramer interface [polypeptide binding]; other site 634453001020 active site 634453001021 Mg2+/Mn2+ binding site [ion binding]; other site 634453001022 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 634453001023 acetyl-CoA synthetase; Provisional; Region: PRK00174 634453001024 acyl-activating enzyme (AAE) consensus motif; other site 634453001025 AMP binding site [chemical binding]; other site 634453001026 active site 634453001027 CoA binding site [chemical binding]; other site 634453001028 putative sialic acid transporter; Region: 2A0112; TIGR00891 634453001029 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 634453001030 putative substrate translocation pore; other site 634453001031 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 634453001032 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 634453001033 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 634453001034 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 634453001035 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 634453001036 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 634453001037 dimer interface [polypeptide binding]; other site 634453001038 anticodon binding site; other site 634453001039 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 634453001040 homodimer interface [polypeptide binding]; other site 634453001041 motif 1; other site 634453001042 active site 634453001043 motif 2; other site 634453001044 GAD domain; Region: GAD; pfam02938 634453001045 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 634453001046 active site 634453001047 motif 3; other site 634453001048 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 634453001049 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 634453001050 tetramer interface [polypeptide binding]; other site 634453001051 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453001052 catalytic residue [active] 634453001053 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 634453001054 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 634453001055 5S rRNA interface [nucleotide binding]; other site 634453001056 CTC domain interface [polypeptide binding]; other site 634453001057 L16 interface [polypeptide binding]; other site 634453001058 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 634453001059 putative active site [active] 634453001060 catalytic residue [active] 634453001061 GTP-binding protein YchF; Reviewed; Region: PRK09601 634453001062 YchF GTPase; Region: YchF; cd01900 634453001063 G1 box; other site 634453001064 GTP/Mg2+ binding site [chemical binding]; other site 634453001065 Switch I region; other site 634453001066 G2 box; other site 634453001067 Switch II region; other site 634453001068 G3 box; other site 634453001069 G4 box; other site 634453001070 G5 box; other site 634453001071 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 634453001072 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 634453001073 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 634453001074 putative catalytic cysteine [active] 634453001075 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 634453001076 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 634453001077 active site 634453001078 (T/H)XGH motif; other site 634453001079 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 634453001080 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 634453001081 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 634453001082 Rhodanese-like domain; Region: Rhodanese; pfam00581 634453001083 active site residue [active] 634453001084 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 634453001085 active site residue [active] 634453001086 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634453001087 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453001088 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 634453001089 putative dimerization interface [polypeptide binding]; other site 634453001090 putative substrate binding pocket [chemical binding]; other site 634453001091 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 634453001092 acetolactate synthase; Reviewed; Region: PRK08617 634453001093 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 634453001094 PYR/PP interface [polypeptide binding]; other site 634453001095 dimer interface [polypeptide binding]; other site 634453001096 TPP binding site [chemical binding]; other site 634453001097 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634453001098 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 634453001099 TPP-binding site [chemical binding]; other site 634453001100 benzoylformate decarboxylase; Reviewed; Region: PRK07092 634453001101 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 634453001102 PYR/PP interface [polypeptide binding]; other site 634453001103 dimer interface [polypeptide binding]; other site 634453001104 TPP binding site [chemical binding]; other site 634453001105 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634453001106 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 634453001107 TPP-binding site [chemical binding]; other site 634453001108 dimer interface [polypeptide binding]; other site 634453001109 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 634453001110 Cysteine-rich domain; Region: CCG; pfam02754 634453001111 Cysteine-rich domain; Region: CCG; pfam02754 634453001112 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 634453001113 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 634453001114 4Fe-4S binding domain; Region: Fer4; pfam00037 634453001115 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 634453001116 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 634453001117 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 634453001118 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 634453001119 hinge; other site 634453001120 active site 634453001121 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 634453001122 trimer interface [polypeptide binding]; other site 634453001123 active site 634453001124 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634453001125 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 634453001126 putative active site [active] 634453001127 YdjC motif; other site 634453001128 Mg binding site [ion binding]; other site 634453001129 putative homodimer interface [polypeptide binding]; other site 634453001130 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 634453001131 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 634453001132 B12 binding site [chemical binding]; other site 634453001133 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 634453001134 FeS/SAM binding site; other site 634453001135 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 634453001136 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 634453001137 ligand binding site; other site 634453001138 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 634453001139 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 634453001140 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 634453001141 TPP-binding site; other site 634453001142 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 634453001143 PYR/PP interface [polypeptide binding]; other site 634453001144 dimer interface [polypeptide binding]; other site 634453001145 TPP binding site [chemical binding]; other site 634453001146 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634453001147 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 634453001148 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 634453001149 FeS/SAM binding site; other site 634453001150 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 634453001151 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 634453001152 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 634453001153 Domain of unknown function DUF21; Region: DUF21; pfam01595 634453001154 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 634453001155 Transporter associated domain; Region: CorC_HlyC; smart01091 634453001156 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 634453001157 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 634453001158 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634453001159 catalytic residue [active] 634453001160 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 634453001161 Fe-S cluster binding site [ion binding]; other site 634453001162 active site 634453001163 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 634453001164 binding surface 634453001165 TPR motif; other site 634453001166 Tetratricopeptide repeat; Region: TPR_12; pfam13424 634453001167 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 634453001168 TPR motif; other site 634453001169 TPR repeat; Region: TPR_11; pfam13414 634453001170 binding surface 634453001171 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 634453001172 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634453001173 NAD(P) binding site [chemical binding]; other site 634453001174 active site 634453001175 Predicted membrane protein [Function unknown]; Region: COG1238 634453001176 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 634453001177 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 634453001178 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 634453001179 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 634453001180 Walker A/P-loop; other site 634453001181 ATP binding site [chemical binding]; other site 634453001182 Q-loop/lid; other site 634453001183 ABC transporter signature motif; other site 634453001184 Walker B; other site 634453001185 D-loop; other site 634453001186 H-loop/switch region; other site 634453001187 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 634453001188 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 634453001189 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 634453001190 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 634453001191 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634453001192 active site 634453001193 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 634453001194 catalytic core [active] 634453001195 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 634453001196 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 634453001197 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634453001198 short chain dehydrogenase; Provisional; Region: PRK12744 634453001199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634453001200 NAD(P) binding site [chemical binding]; other site 634453001201 active site 634453001202 transcriptional regulator; Provisional; Region: PRK10632 634453001203 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453001204 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 634453001205 putative effector binding pocket; other site 634453001206 putative dimerization interface [polypeptide binding]; other site 634453001207 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 634453001208 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 634453001209 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 634453001210 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 634453001211 N-terminal plug; other site 634453001212 ligand-binding site [chemical binding]; other site 634453001213 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 634453001214 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 634453001215 intersubunit interface [polypeptide binding]; other site 634453001216 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 634453001217 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 634453001218 putative PBP binding regions; other site 634453001219 ABC-ATPase subunit interface; other site 634453001220 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 634453001221 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 634453001222 Walker A/P-loop; other site 634453001223 ATP binding site [chemical binding]; other site 634453001224 Q-loop/lid; other site 634453001225 ABC transporter signature motif; other site 634453001226 Walker B; other site 634453001227 D-loop; other site 634453001228 H-loop/switch region; other site 634453001229 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 634453001230 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 634453001231 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 634453001232 active site 634453001233 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 634453001234 nucleotide binding site [chemical binding]; other site 634453001235 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 634453001236 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 634453001237 putative active site [active] 634453001238 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u1; cd11493 634453001239 Na binding site [ion binding]; other site 634453001240 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 634453001241 long tail fiber, proximal subunit; Provisional; Region: 34; PHA02584 634453001242 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453001243 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453001244 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453001245 Hint domain; Region: Hint_2; pfam13403 634453001246 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 634453001247 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 634453001248 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 634453001249 DNA binding residues [nucleotide binding] 634453001250 dimerization interface [polypeptide binding]; other site 634453001251 Hint domain; Region: Hint_2; pfam13403 634453001252 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 634453001253 DNA photolyase; Region: DNA_photolyase; pfam00875 634453001254 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 634453001255 SelR domain; Region: SelR; pfam01641 634453001256 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 634453001257 Domain of unknown function DUF20; Region: UPF0118; pfam01594 634453001258 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 634453001259 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 634453001260 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 634453001261 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453001262 homodimer interface [polypeptide binding]; other site 634453001263 catalytic residue [active] 634453001264 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634453001265 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453001266 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453001267 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634453001268 Hint domain; Region: Hint_2; pfam13403 634453001269 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 634453001270 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 634453001271 dimerization interface [polypeptide binding]; other site 634453001272 DPS ferroxidase diiron center [ion binding]; other site 634453001273 ion pore; other site 634453001274 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 634453001275 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 634453001276 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 634453001277 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 634453001278 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 634453001279 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 634453001280 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634453001281 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453001282 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 634453001283 dimerization interface [polypeptide binding]; other site 634453001284 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 634453001285 methylamine dehydrogenase (amicyanin) heavy chain; Region: TTQ_MADH_Hv; TIGR02658 634453001286 Methylamine utilisation protein MauE; Region: MauE; pfam07291 634453001287 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 634453001288 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 634453001289 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 634453001290 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 634453001291 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 634453001292 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 634453001293 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 634453001294 active site 634453001295 catalytic tetrad [active] 634453001296 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634453001297 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453001298 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 634453001299 dimerization interface [polypeptide binding]; other site 634453001300 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 634453001301 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634453001302 NAD binding site [chemical binding]; other site 634453001303 catalytic residues [active] 634453001304 substrate binding site [chemical binding]; other site 634453001305 Cytochrome c; Region: Cytochrom_C; cl11414 634453001306 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634453001307 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 634453001308 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634453001309 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 634453001310 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 634453001311 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634453001312 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634453001313 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 634453001314 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 634453001315 catalytic loop [active] 634453001316 iron binding site [ion binding]; other site 634453001317 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 634453001318 Protein of unknown function (DUF563); Region: DUF563; pfam04577 634453001319 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 634453001320 S-adenosylmethionine binding site [chemical binding]; other site 634453001321 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 634453001322 Hint domain; Region: Hint_2; pfam13403 634453001323 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 634453001324 putative substrate translocation pore; other site 634453001325 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634453001326 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 634453001327 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 634453001328 Predicted integral membrane protein [Function unknown]; Region: COG0762 634453001329 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 634453001330 Protein of unknown function (DUF805); Region: DUF805; pfam05656 634453001331 CHRD domain; Region: CHRD; pfam07452 634453001332 Predicted membrane protein [Function unknown]; Region: COG3650 634453001333 META domain; Region: META; pfam03724 634453001334 Hint domain; Region: Hint_2; pfam13403 634453001335 T5orf172 domain; Region: T5orf172; pfam10544 634453001336 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 634453001337 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 634453001338 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 634453001339 N-terminal plug; other site 634453001340 ligand-binding site [chemical binding]; other site 634453001341 Cytochrome c; Region: Cytochrom_C; pfam00034 634453001342 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 634453001343 FAD dependent oxidoreductase; Region: DAO; pfam01266 634453001344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634453001345 NmrA-like family; Region: NmrA; pfam05368 634453001346 NAD(P) binding site [chemical binding]; other site 634453001347 active site 634453001348 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 634453001349 Hint domain; Region: Hint_2; pfam13403 634453001350 Hint domain; Region: Hint_2; pfam13403 634453001351 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 634453001352 Hint domain; Region: Hint_2; pfam13403 634453001353 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 634453001354 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 634453001355 non-specific DNA binding site [nucleotide binding]; other site 634453001356 salt bridge; other site 634453001357 sequence-specific DNA binding site [nucleotide binding]; other site 634453001358 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 634453001359 Catalytic site [active] 634453001360 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 634453001361 Hint domain; Region: Hint_2; pfam13403 634453001362 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 634453001363 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 634453001364 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 634453001365 DNA-binding interface [nucleotide binding]; DNA binding site 634453001366 Hint domain; Region: Hint_2; pfam13403 634453001367 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 634453001368 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 634453001369 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 634453001370 FeS/SAM binding site; other site 634453001371 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 634453001372 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 634453001373 Terminase-like family; Region: Terminase_6; pfam03237 634453001374 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 634453001375 hypothetical protein; Validated; Region: PRK01415 634453001376 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 634453001377 active site residue [active] 634453001378 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 634453001379 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 634453001380 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 634453001381 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 634453001382 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 634453001383 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 634453001384 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 634453001385 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453001386 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 634453001387 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 634453001388 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 634453001389 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634453001390 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 634453001391 Phosphotransferase enzyme family; Region: APH; pfam01636 634453001392 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 634453001393 substrate binding site [chemical binding]; other site 634453001394 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 634453001395 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 634453001396 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 634453001397 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 634453001398 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 634453001399 putative active site [active] 634453001400 putative substrate binding site [chemical binding]; other site 634453001401 putative cosubstrate binding site; other site 634453001402 catalytic site [active] 634453001403 Uncharacterized conserved protein [Function unknown]; Region: COG3189 634453001404 Predicted transcriptional regulator [Transcription]; Region: COG1959 634453001405 Transcriptional regulator; Region: Rrf2; cl17282 634453001406 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634453001407 malonic semialdehyde reductase; Provisional; Region: PRK10538 634453001408 NAD(P) binding site [chemical binding]; other site 634453001409 active site 634453001410 CrcB-like protein; Region: CRCB; cl09114 634453001411 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 634453001412 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 634453001413 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 634453001414 dinuclear metal binding motif [ion binding]; other site 634453001415 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 634453001416 Hint domain; Region: Hint_2; pfam13403 634453001417 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 634453001418 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634453001419 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 634453001420 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 634453001421 active site 634453001422 Zn binding site [ion binding]; other site 634453001423 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634453001424 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 634453001425 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634453001426 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634453001427 Coenzyme A transferase; Region: CoA_trans; smart00882 634453001428 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453001429 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453001430 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453001431 Coenzyme A transferase; Region: CoA_trans; cl17247 634453001432 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 634453001433 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 634453001434 MOFRL family; Region: MOFRL; pfam05161 634453001435 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 634453001436 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 634453001437 active site 634453001438 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 634453001439 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634453001440 NAD(P) binding site [chemical binding]; other site 634453001441 active site 634453001442 Protein of unknown function (DUF993); Region: DUF993; pfam06187 634453001443 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 634453001444 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 634453001445 DNA interaction; other site 634453001446 Metal-binding active site; metal-binding site 634453001447 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 634453001448 Electron transfer flavoprotein domain; Region: ETF; pfam01012 634453001449 Ligand binding site [chemical binding]; other site 634453001450 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453001451 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453001452 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453001453 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 634453001454 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 634453001455 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 634453001456 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634453001457 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 634453001458 NAD(P) binding site [chemical binding]; other site 634453001459 catalytic residues [active] 634453001460 choline dehydrogenase; Validated; Region: PRK02106 634453001461 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 634453001462 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 634453001463 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 634453001464 putative substrate translocation pore; other site 634453001465 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634453001466 Hint domain; Region: Hint_2; pfam13403 634453001467 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634453001468 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453001469 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453001470 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453001471 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 634453001472 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 634453001473 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 634453001474 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 634453001475 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 634453001476 tetramer interface [polypeptide binding]; other site 634453001477 TPP-binding site [chemical binding]; other site 634453001478 heterodimer interface [polypeptide binding]; other site 634453001479 phosphorylation loop region [posttranslational modification] 634453001480 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 634453001481 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 634453001482 alpha subunit interface [polypeptide binding]; other site 634453001483 TPP binding site [chemical binding]; other site 634453001484 heterodimer interface [polypeptide binding]; other site 634453001485 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634453001486 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 634453001487 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 634453001488 E3 interaction surface; other site 634453001489 lipoyl attachment site [posttranslational modification]; other site 634453001490 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 634453001491 catalytic site [active] 634453001492 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 634453001493 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 634453001494 putative dimer interface [polypeptide binding]; other site 634453001495 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 634453001496 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634453001497 FOG: WD40 repeat [General function prediction only]; Region: COG2319 634453001498 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 634453001499 structural tetrad; other site 634453001500 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 634453001501 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 634453001502 P-loop, Walker A motif; other site 634453001503 Base recognition motif; other site 634453001504 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 634453001505 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 634453001506 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 634453001507 putative ion selectivity filter; other site 634453001508 putative pore gating glutamate residue; other site 634453001509 putative H+/Cl- coupling transport residue; other site 634453001510 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 634453001511 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 634453001512 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 634453001513 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 634453001514 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634453001515 acyl-CoA esterase; Provisional; Region: PRK10673 634453001516 PGAP1-like protein; Region: PGAP1; pfam07819 634453001517 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 634453001518 Ligand Binding Site [chemical binding]; other site 634453001519 Predicted membrane protein [Function unknown]; Region: COG1297 634453001520 putative oligopeptide transporter, OPT family; Region: TIGR00733 634453001521 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 634453001522 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 634453001523 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 634453001524 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 634453001525 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 634453001526 ATP binding site [chemical binding]; other site 634453001527 substrate interface [chemical binding]; other site 634453001528 Bacterial SH3 domain; Region: SH3_4; pfam06347 634453001529 Bacterial SH3 domain; Region: SH3_4; pfam06347 634453001530 pyruvate kinase; Provisional; Region: PRK06247 634453001531 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 634453001532 domain interfaces; other site 634453001533 active site 634453001534 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 634453001535 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 634453001536 putative substrate translocation pore; other site 634453001537 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634453001538 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 634453001539 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 634453001540 G1 box; other site 634453001541 putative GEF interaction site [polypeptide binding]; other site 634453001542 GTP/Mg2+ binding site [chemical binding]; other site 634453001543 Switch I region; other site 634453001544 G2 box; other site 634453001545 G3 box; other site 634453001546 Switch II region; other site 634453001547 G4 box; other site 634453001548 G5 box; other site 634453001549 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 634453001550 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 634453001551 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 634453001552 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634453001553 hydroxyglutarate oxidase; Provisional; Region: PRK11728 634453001554 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 634453001555 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634453001556 isocitrate dehydrogenase; Validated; Region: PRK08299 634453001557 hypothetical protein; Provisional; Region: PRK08912 634453001558 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 634453001559 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453001560 homodimer interface [polypeptide binding]; other site 634453001561 catalytic residue [active] 634453001562 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 634453001563 Nitrogen regulatory protein P-II; Region: P-II; smart00938 634453001564 glutamine synthetase; Provisional; Region: glnA; PRK09469 634453001565 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 634453001566 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 634453001567 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634453001568 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 634453001569 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 634453001570 Trp docking motif [polypeptide binding]; other site 634453001571 putative active site [active] 634453001572 Predicted transcriptional regulator [Transcription]; Region: COG2932 634453001573 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 634453001574 Catalytic site [active] 634453001575 GTP-binding protein LepA; Provisional; Region: PRK05433 634453001576 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 634453001577 G1 box; other site 634453001578 putative GEF interaction site [polypeptide binding]; other site 634453001579 GTP/Mg2+ binding site [chemical binding]; other site 634453001580 Switch I region; other site 634453001581 G2 box; other site 634453001582 G3 box; other site 634453001583 Switch II region; other site 634453001584 G4 box; other site 634453001585 G5 box; other site 634453001586 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 634453001587 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 634453001588 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 634453001589 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 634453001590 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 634453001591 Methyltransferase domain; Region: Methyltransf_23; pfam13489 634453001592 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 634453001593 S-adenosylmethionine binding site [chemical binding]; other site 634453001594 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 634453001595 DEAD-like helicases superfamily; Region: DEXDc; smart00487 634453001596 ATP binding site [chemical binding]; other site 634453001597 Mg++ binding site [ion binding]; other site 634453001598 motif III; other site 634453001599 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 634453001600 nucleotide binding region [chemical binding]; other site 634453001601 ATP-binding site [chemical binding]; other site 634453001602 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 634453001603 putative catalytic site [active] 634453001604 putative metal binding site [ion binding]; other site 634453001605 putative phosphate binding site [ion binding]; other site 634453001606 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 634453001607 active site clefts [active] 634453001608 zinc binding site [ion binding]; other site 634453001609 dimer interface [polypeptide binding]; other site 634453001610 LabA_like proteins; Region: LabA; cd10911 634453001611 Uncharacterized conserved protein [Function unknown]; Region: COG1432 634453001612 putative metal binding site [ion binding]; other site 634453001613 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 634453001614 catalytic center binding site [active] 634453001615 ATP binding site [chemical binding]; other site 634453001616 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 634453001617 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 634453001618 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 634453001619 Zn2+ binding site [ion binding]; other site 634453001620 Mg2+ binding site [ion binding]; other site 634453001621 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 634453001622 synthetase active site [active] 634453001623 NTP binding site [chemical binding]; other site 634453001624 metal binding site [ion binding]; metal-binding site 634453001625 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 634453001626 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 634453001627 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 634453001628 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 634453001629 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 634453001630 Catalytic site [active] 634453001631 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 634453001632 ribonuclease III; Reviewed; Region: rnc; PRK00102 634453001633 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 634453001634 dimerization interface [polypeptide binding]; other site 634453001635 active site 634453001636 metal binding site [ion binding]; metal-binding site 634453001637 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 634453001638 GTPase Era; Reviewed; Region: era; PRK00089 634453001639 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 634453001640 G1 box; other site 634453001641 GTP/Mg2+ binding site [chemical binding]; other site 634453001642 Switch I region; other site 634453001643 G2 box; other site 634453001644 Switch II region; other site 634453001645 G3 box; other site 634453001646 G4 box; other site 634453001647 G5 box; other site 634453001648 KH domain; Region: KH_2; pfam07650 634453001649 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 634453001650 putative nucleotide binding site [chemical binding]; other site 634453001651 uridine monophosphate binding site [chemical binding]; other site 634453001652 homohexameric interface [polypeptide binding]; other site 634453001653 ribosome recycling factor; Reviewed; Region: frr; PRK00083 634453001654 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 634453001655 hinge region; other site 634453001656 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 634453001657 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 634453001658 catalytic residue [active] 634453001659 putative FPP diphosphate binding site; other site 634453001660 putative FPP binding hydrophobic cleft; other site 634453001661 dimer interface [polypeptide binding]; other site 634453001662 putative IPP diphosphate binding site; other site 634453001663 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 634453001664 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 634453001665 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 634453001666 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 634453001667 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 634453001668 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 634453001669 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 634453001670 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 634453001671 active site 634453001672 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 634453001673 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 634453001674 putative substrate binding region [chemical binding]; other site 634453001675 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634453001676 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 634453001677 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634453001678 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634453001679 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634453001680 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634453001681 Surface antigen; Region: Bac_surface_Ag; pfam01103 634453001682 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 634453001683 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 634453001684 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 634453001685 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 634453001686 trimer interface [polypeptide binding]; other site 634453001687 active site 634453001688 UDP-GlcNAc binding site [chemical binding]; other site 634453001689 lipid binding site [chemical binding]; lipid-binding site 634453001690 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 634453001691 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 634453001692 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 634453001693 active site 634453001694 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 634453001695 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 634453001696 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 634453001697 dimer interface [polypeptide binding]; other site 634453001698 active site 634453001699 metal binding site [ion binding]; metal-binding site 634453001700 glutathione binding site [chemical binding]; other site 634453001701 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 634453001702 Ribonuclease P; Region: Ribonuclease_P; pfam00825 634453001703 membrane protein insertase; Provisional; Region: PRK01318 634453001704 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 634453001705 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 634453001706 G1 box; other site 634453001707 GTP/Mg2+ binding site [chemical binding]; other site 634453001708 Switch I region; other site 634453001709 G2 box; other site 634453001710 G3 box; other site 634453001711 Switch II region; other site 634453001712 G4 box; other site 634453001713 G5 box; other site 634453001714 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 634453001715 homohexameric interface [polypeptide binding]; other site 634453001716 feedback inhibition sensing region; other site 634453001717 nucleotide binding site [chemical binding]; other site 634453001718 N-acetyl-L-glutamate binding site [chemical binding]; other site 634453001719 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 634453001720 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 634453001721 trimer interface [polypeptide binding]; other site 634453001722 active site 634453001723 substrate binding site [chemical binding]; other site 634453001724 CoA binding site [chemical binding]; other site 634453001725 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 634453001726 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 634453001727 metal binding site [ion binding]; metal-binding site 634453001728 dimer interface [polypeptide binding]; other site 634453001729 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 634453001730 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 634453001731 dimerization interface 3.5A [polypeptide binding]; other site 634453001732 active site 634453001733 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 634453001734 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 634453001735 putative active site [active] 634453001736 substrate binding site [chemical binding]; other site 634453001737 putative cosubstrate binding site; other site 634453001738 catalytic site [active] 634453001739 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 634453001740 substrate binding site [chemical binding]; other site 634453001741 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 634453001742 active site 634453001743 catalytic residues [active] 634453001744 metal binding site [ion binding]; metal-binding site 634453001745 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 634453001746 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 634453001747 putative dimer interface [polypeptide binding]; other site 634453001748 Protein of unknown function (DUF1150); Region: DUF1150; cl11577 634453001749 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 634453001750 30S subunit binding site; other site 634453001751 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 634453001752 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 634453001753 MOSC domain; Region: MOSC; pfam03473 634453001754 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 634453001755 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 634453001756 Walker A/P-loop; other site 634453001757 ATP binding site [chemical binding]; other site 634453001758 Q-loop/lid; other site 634453001759 ABC transporter signature motif; other site 634453001760 Walker B; other site 634453001761 D-loop; other site 634453001762 H-loop/switch region; other site 634453001763 OstA-like protein; Region: OstA; cl00844 634453001764 OstA-like protein; Region: OstA; cl00844 634453001765 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 634453001766 KpsF/GutQ family protein; Region: kpsF; TIGR00393 634453001767 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 634453001768 putative active site [active] 634453001769 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 634453001770 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 634453001771 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 634453001772 catalytic site [active] 634453001773 putative active site [active] 634453001774 putative substrate binding site [chemical binding]; other site 634453001775 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 634453001776 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 634453001777 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 634453001778 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 634453001779 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 634453001780 short chain dehydrogenase; Provisional; Region: PRK07024 634453001781 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634453001782 NAD(P) binding site [chemical binding]; other site 634453001783 active site 634453001784 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 634453001785 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 634453001786 catalytic site [active] 634453001787 G-X2-G-X-G-K; other site 634453001788 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 634453001789 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 634453001790 putative ribose interaction site [chemical binding]; other site 634453001791 putative ADP binding site [chemical binding]; other site 634453001792 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 634453001793 active site 634453001794 nucleotide binding site [chemical binding]; other site 634453001795 HIGH motif; other site 634453001796 KMSKS motif; other site 634453001797 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 634453001798 dimerization interface [polypeptide binding]; other site 634453001799 putative active cleft [active] 634453001800 replicative DNA helicase; Provisional; Region: PRK09165 634453001801 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 634453001802 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 634453001803 Walker A motif; other site 634453001804 ATP binding site [chemical binding]; other site 634453001805 Walker B motif; other site 634453001806 DNA binding loops [nucleotide binding] 634453001807 Nuclease-related domain; Region: NERD; pfam08378 634453001808 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 634453001809 Mechanosensitive ion channel; Region: MS_channel; pfam00924 634453001810 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 634453001811 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 634453001812 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453001813 Walker A/P-loop; other site 634453001814 ATP binding site [chemical binding]; other site 634453001815 Q-loop/lid; other site 634453001816 ABC transporter signature motif; other site 634453001817 Walker B; other site 634453001818 D-loop; other site 634453001819 H-loop/switch region; other site 634453001820 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 634453001821 Permease; Region: Permease; pfam02405 634453001822 DNA repair protein RadA; Provisional; Region: PRK11823 634453001823 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 634453001824 Walker A motif/ATP binding site; other site 634453001825 ATP binding site [chemical binding]; other site 634453001826 Walker B motif; other site 634453001827 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 634453001828 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 634453001829 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 634453001830 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 634453001831 Proline dehydrogenase; Region: Pro_dh; pfam01619 634453001832 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 634453001833 NAD(P) binding site [chemical binding]; other site 634453001834 catalytic residues [active] 634453001835 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 634453001836 Transcriptional regulators [Transcription]; Region: GntR; COG1802 634453001837 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 634453001838 DNA-binding site [nucleotide binding]; DNA binding site 634453001839 FCD domain; Region: FCD; pfam07729 634453001840 Protein of unknown function (DUF2501); Region: DUF2501; cl08197 634453001841 acetyl-CoA synthetase; Provisional; Region: PRK00174 634453001842 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 634453001843 acyl-activating enzyme (AAE) consensus motif; other site 634453001844 AMP binding site [chemical binding]; other site 634453001845 active site 634453001846 CoA binding site [chemical binding]; other site 634453001847 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 634453001848 FtsJ-like methyltransferase; Region: FtsJ; cl17430 634453001849 Protein of unknown function (DUF423); Region: DUF423; pfam04241 634453001850 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 634453001851 hypothetical protein; Validated; Region: PRK09039 634453001852 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 634453001853 FAD binding domain; Region: FAD_binding_4; pfam01565 634453001854 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 634453001855 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 634453001856 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 634453001857 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 634453001858 active site 634453001859 multifunctional aminopeptidase A; Provisional; Region: PRK00913 634453001860 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 634453001861 interface (dimer of trimers) [polypeptide binding]; other site 634453001862 Substrate-binding/catalytic site; other site 634453001863 Zn-binding sites [ion binding]; other site 634453001864 DNA polymerase III subunit chi; Validated; Region: PRK05728 634453001865 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 634453001866 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 634453001867 active site 634453001868 catalytic tetrad [active] 634453001869 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 634453001870 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 634453001871 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 634453001872 protein binding site [polypeptide binding]; other site 634453001873 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 634453001874 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 634453001875 ATP binding site [chemical binding]; other site 634453001876 putative Mg++ binding site [ion binding]; other site 634453001877 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 634453001878 nucleotide binding region [chemical binding]; other site 634453001879 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 634453001880 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 634453001881 dimerization interface [polypeptide binding]; other site 634453001882 domain crossover interface; other site 634453001883 redox-dependent activation switch; other site 634453001884 ornithine carbamoyltransferase; Provisional; Region: PRK00779 634453001885 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 634453001886 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 634453001887 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 634453001888 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 634453001889 inhibitor-cofactor binding pocket; inhibition site 634453001890 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453001891 catalytic residue [active] 634453001892 RecX family; Region: RecX; pfam02631 634453001893 CHAP domain; Region: CHAP; cl17642 634453001894 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 634453001895 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 634453001896 intersubunit interface [polypeptide binding]; other site 634453001897 active site 634453001898 Zn2+ binding site [ion binding]; other site 634453001899 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 634453001900 Cupin domain; Region: Cupin_2; cl17218 634453001901 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 634453001902 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 634453001903 motif II; other site 634453001904 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 634453001905 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 634453001906 active site 634453001907 Riboflavin kinase; Region: Flavokinase; smart00904 634453001908 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 634453001909 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634453001910 active site 634453001911 HIGH motif; other site 634453001912 nucleotide binding site [chemical binding]; other site 634453001913 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 634453001914 active site 634453001915 KMSKS motif; other site 634453001916 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 634453001917 tRNA binding surface [nucleotide binding]; other site 634453001918 anticodon binding site; other site 634453001919 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 634453001920 lipoprotein signal peptidase; Provisional; Region: PRK14770 634453001921 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 634453001922 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 634453001923 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 634453001924 ATP binding site [chemical binding]; other site 634453001925 Mg2+ binding site [ion binding]; other site 634453001926 G-X-G motif; other site 634453001927 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 634453001928 ATP binding site [chemical binding]; other site 634453001929 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 634453001930 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 634453001931 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 634453001932 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 634453001933 EamA-like transporter family; Region: EamA; pfam00892 634453001934 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 634453001935 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 634453001936 Mg2+ binding site [ion binding]; other site 634453001937 G-X-G motif; other site 634453001938 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 634453001939 anchoring element; other site 634453001940 dimer interface [polypeptide binding]; other site 634453001941 ATP binding site [chemical binding]; other site 634453001942 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 634453001943 active site 634453001944 putative metal-binding site [ion binding]; other site 634453001945 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 634453001946 Rrf2 family protein; Region: rrf2_super; TIGR00738 634453001947 Transcriptional regulator; Region: Rrf2; pfam02082 634453001948 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 634453001949 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 634453001950 dimer interface [polypeptide binding]; other site 634453001951 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453001952 catalytic residue [active] 634453001953 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 634453001954 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 634453001955 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 634453001956 ligand binding site [chemical binding]; other site 634453001957 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 634453001958 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 634453001959 C-terminal peptidase (prc); Region: prc; TIGR00225 634453001960 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 634453001961 protein binding site [polypeptide binding]; other site 634453001962 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 634453001963 Catalytic dyad [active] 634453001964 Exoribonuclease R [Transcription]; Region: VacB; COG0557 634453001965 RNB domain; Region: RNB; pfam00773 634453001966 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 634453001967 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 634453001968 active site 634453001969 interdomain interaction site; other site 634453001970 putative metal-binding site [ion binding]; other site 634453001971 nucleotide binding site [chemical binding]; other site 634453001972 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 634453001973 domain I; other site 634453001974 DNA binding groove [nucleotide binding] 634453001975 phosphate binding site [ion binding]; other site 634453001976 domain II; other site 634453001977 domain III; other site 634453001978 nucleotide binding site [chemical binding]; other site 634453001979 catalytic site [active] 634453001980 domain IV; other site 634453001981 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 634453001982 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 634453001983 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 634453001984 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 634453001985 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 634453001986 DNA protecting protein DprA; Region: dprA; TIGR00732 634453001987 DDE superfamily endonuclease; Region: DDE_5; pfam13546 634453001988 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453001989 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634453001990 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 634453001991 DNA protecting protein DprA; Region: dprA; TIGR00732 634453001992 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 634453001993 dihydroorotase; Validated; Region: pyrC; PRK09357 634453001994 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 634453001995 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 634453001996 active site 634453001997 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 634453001998 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 634453001999 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 634453002000 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 634453002001 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634453002002 active site 634453002003 HIGH motif; other site 634453002004 nucleotide binding site [chemical binding]; other site 634453002005 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 634453002006 active site 634453002007 KMSKS motif; other site 634453002008 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 634453002009 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 634453002010 Competence protein; Region: Competence; pfam03772 634453002011 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 634453002012 Predicted ATPase [General function prediction only]; Region: COG1485 634453002013 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 634453002014 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 634453002015 TPP-binding site [chemical binding]; other site 634453002016 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 634453002017 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 634453002018 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 634453002019 E3 interaction surface; other site 634453002020 lipoyl attachment site [posttranslational modification]; other site 634453002021 e3 binding domain; Region: E3_binding; pfam02817 634453002022 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 634453002023 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 634453002024 E3 interaction surface; other site 634453002025 lipoyl attachment site [posttranslational modification]; other site 634453002026 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 634453002027 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 634453002028 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634453002029 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 634453002030 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 634453002031 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 634453002032 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 634453002033 homotetramer interface [polypeptide binding]; other site 634453002034 ligand binding site [chemical binding]; other site 634453002035 catalytic site [active] 634453002036 NAD binding site [chemical binding]; other site 634453002037 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 634453002038 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 634453002039 putative acyl-acceptor binding pocket; other site 634453002040 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 634453002041 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 634453002042 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 634453002043 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 634453002044 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 634453002045 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 634453002046 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 634453002047 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 634453002048 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 634453002049 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 634453002050 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 634453002051 motif 1; other site 634453002052 active site 634453002053 motif 2; other site 634453002054 motif 3; other site 634453002055 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 634453002056 TraB family; Region: TraB; cl12050 634453002057 Predicted membrane protein [Function unknown]; Region: COG2246 634453002058 GtrA-like protein; Region: GtrA; pfam04138 634453002059 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 634453002060 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 634453002061 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 634453002062 ligand binding site [chemical binding]; other site 634453002063 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 634453002064 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional; Region: PRK14021 634453002065 ADP binding site [chemical binding]; other site 634453002066 magnesium binding site [ion binding]; other site 634453002067 putative shikimate binding site; other site 634453002068 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 634453002069 active site 634453002070 dimer interface [polypeptide binding]; other site 634453002071 metal binding site [ion binding]; metal-binding site 634453002072 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 634453002073 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 634453002074 active site 634453002075 DNA binding site [nucleotide binding] 634453002076 Int/Topo IB signature motif; other site 634453002077 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 634453002078 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 634453002079 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 634453002080 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 634453002081 putative MPT binding site; other site 634453002082 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 634453002083 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634453002084 active site 634453002085 nucleotide binding site [chemical binding]; other site 634453002086 HIGH motif; other site 634453002087 KMSKS motif; other site 634453002088 Predicted integral membrane protein [Function unknown]; Region: COG0392 634453002089 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 634453002090 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 634453002091 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 634453002092 UGMP family protein; Validated; Region: PRK09604 634453002093 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 634453002094 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 634453002095 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 634453002096 domain interfaces; other site 634453002097 active site 634453002098 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 634453002099 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 634453002100 active site 634453002101 preprotein translocase subunit SecB; Validated; Region: PRK05751 634453002102 SecA binding site; other site 634453002103 Preprotein binding site; other site 634453002104 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 634453002105 catalytic core [active] 634453002106 Tim44-like domain; Region: Tim44; pfam04280 634453002107 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 634453002108 DNA methylase; Region: N6_N4_Mtase; pfam01555 634453002109 Haem-binding domain; Region: Haem_bd; pfam14376 634453002110 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 634453002111 Smr domain; Region: Smr; pfam01713 634453002112 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 634453002113 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 634453002114 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 634453002115 Qi binding site; other site 634453002116 intrachain domain interface; other site 634453002117 interchain domain interface [polypeptide binding]; other site 634453002118 heme bH binding site [chemical binding]; other site 634453002119 heme bL binding site [chemical binding]; other site 634453002120 Qo binding site; other site 634453002121 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 634453002122 intrachain domain interface; other site 634453002123 interchain domain interface [polypeptide binding]; other site 634453002124 Qi binding site; other site 634453002125 Qo binding site; other site 634453002126 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 634453002127 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 634453002128 Protein of unknown function (DUF4232); Region: DUF4232; pfam14016 634453002129 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 634453002130 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 634453002131 FMN binding site [chemical binding]; other site 634453002132 dimer interface [polypeptide binding]; other site 634453002133 ornithine cyclodeaminase; Validated; Region: PRK07340 634453002134 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 634453002135 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 634453002136 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 634453002137 NAD(P) binding site [chemical binding]; other site 634453002138 catalytic residues [active] 634453002139 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634453002140 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634453002141 WHG domain; Region: WHG; pfam13305 634453002142 Transposase; Region: HTH_Tnp_1; pfam01527 634453002143 HTH-like domain; Region: HTH_21; pfam13276 634453002144 Integrase core domain; Region: rve; pfam00665 634453002145 Integrase core domain; Region: rve_3; pfam13683 634453002146 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453002147 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634453002148 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 634453002149 catalytic residues [active] 634453002150 catalytic nucleophile [active] 634453002151 Presynaptic Site I dimer interface [polypeptide binding]; other site 634453002152 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634453002153 Synaptic Flat tetramer interface [polypeptide binding]; other site 634453002154 Synaptic Site I dimer interface [polypeptide binding]; other site 634453002155 DNA binding site [nucleotide binding] 634453002156 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 634453002157 DNA-binding interface [nucleotide binding]; DNA binding site 634453002158 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 634453002159 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 634453002160 active site 634453002161 DNA binding site [nucleotide binding] 634453002162 Int/Topo IB signature motif; other site 634453002163 integrase; Provisional; Region: PRK09692 634453002164 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 634453002165 active site 634453002166 Int/Topo IB signature motif; other site 634453002167 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cl07889 634453002168 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 634453002169 HicB family; Region: HicB; pfam05534 634453002170 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 634453002171 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 634453002172 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 634453002173 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453002174 Walker A/P-loop; other site 634453002175 ATP binding site [chemical binding]; other site 634453002176 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 634453002177 synthetase active site [active] 634453002178 NTP binding site [chemical binding]; other site 634453002179 metal binding site [ion binding]; metal-binding site 634453002180 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634453002181 Transposase; Region: HTH_Tnp_1; pfam01527 634453002182 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 634453002183 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634453002184 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 634453002185 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634453002186 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 634453002187 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 634453002188 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 634453002189 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 634453002190 HTH-like domain; Region: HTH_21; pfam13276 634453002191 Integrase core domain; Region: rve; pfam00665 634453002192 Integrase core domain; Region: rve_3; pfam13683 634453002193 Transposase; Region: HTH_Tnp_1; pfam01527 634453002194 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 634453002195 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 634453002196 non-specific DNA binding site [nucleotide binding]; other site 634453002197 salt bridge; other site 634453002198 sequence-specific DNA binding site [nucleotide binding]; other site 634453002199 hypothetical protein; Validated; Region: PRK07078 634453002200 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 634453002201 active site 634453002202 metal binding site [ion binding]; metal-binding site 634453002203 interdomain interaction site; other site 634453002204 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 634453002205 Domain of unknown function (DUF927); Region: DUF927; pfam06048 634453002206 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 634453002207 active site 634453002208 oligomerization interface [polypeptide binding]; other site 634453002209 metal binding site [ion binding]; metal-binding site 634453002210 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 634453002211 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 634453002212 active site 634453002213 FMN binding site [chemical binding]; other site 634453002214 substrate binding site [chemical binding]; other site 634453002215 homotetramer interface [polypeptide binding]; other site 634453002216 catalytic residue [active] 634453002217 Helix-turn-helix domain; Region: HTH_20; pfam12840 634453002218 dimerization interface [polypeptide binding]; other site 634453002219 putative DNA binding site [nucleotide binding]; other site 634453002220 putative Zn2+ binding site [ion binding]; other site 634453002221 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 634453002222 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 634453002223 putative NAD(P) binding site [chemical binding]; other site 634453002224 putative substrate binding site [chemical binding]; other site 634453002225 catalytic Zn binding site [ion binding]; other site 634453002226 structural Zn binding site [ion binding]; other site 634453002227 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 634453002228 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 634453002229 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 634453002230 NAD binding site [chemical binding]; other site 634453002231 homodimer interface [polypeptide binding]; other site 634453002232 active site 634453002233 substrate binding site [chemical binding]; other site 634453002234 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 634453002235 diaminopimelate decarboxylase; Region: lysA; TIGR01048 634453002236 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 634453002237 active site 634453002238 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 634453002239 substrate binding site [chemical binding]; other site 634453002240 catalytic residues [active] 634453002241 dimer interface [polypeptide binding]; other site 634453002242 argininosuccinate lyase; Provisional; Region: PRK00855 634453002243 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 634453002244 active sites [active] 634453002245 tetramer interface [polypeptide binding]; other site 634453002246 N-formylglutamate amidohydrolase; Region: FGase; cl01522 634453002247 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 634453002248 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 634453002249 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 634453002250 shikimate binding site; other site 634453002251 NAD(P) binding site [chemical binding]; other site 634453002252 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 634453002253 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 634453002254 CoA-binding site [chemical binding]; other site 634453002255 ATP-binding [chemical binding]; other site 634453002256 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 634453002257 active site 634453002258 catalytic site [active] 634453002259 substrate binding site [chemical binding]; other site 634453002260 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634453002261 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 634453002262 putative ADP-binding pocket [chemical binding]; other site 634453002263 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 634453002264 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 634453002265 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 634453002266 substrate binding site [chemical binding]; other site 634453002267 hexamer interface [polypeptide binding]; other site 634453002268 metal binding site [ion binding]; metal-binding site 634453002269 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 634453002270 putative RNA binding site [nucleotide binding]; other site 634453002271 16S rRNA methyltransferase B; Provisional; Region: PRK10901 634453002272 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 634453002273 S-adenosylmethionine binding site [chemical binding]; other site 634453002274 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 634453002275 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 634453002276 active site 634453002277 substrate binding site [chemical binding]; other site 634453002278 cosubstrate binding site; other site 634453002279 catalytic site [active] 634453002280 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 634453002281 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 634453002282 dimerization interface [polypeptide binding]; other site 634453002283 putative ATP binding site [chemical binding]; other site 634453002284 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 634453002285 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 634453002286 polyphosphate kinase; Provisional; Region: PRK05443 634453002287 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 634453002288 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 634453002289 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 634453002290 putative domain interface [polypeptide binding]; other site 634453002291 putative active site [active] 634453002292 catalytic site [active] 634453002293 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 634453002294 putative domain interface [polypeptide binding]; other site 634453002295 putative active site [active] 634453002296 catalytic site [active] 634453002297 exopolyphosphatase; Region: exo_poly_only; TIGR03706 634453002298 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 634453002299 Cache domain; Region: Cache_1; pfam02743 634453002300 cyclase homology domain; Region: CHD; cd07302 634453002301 nucleotidyl binding site; other site 634453002302 metal binding site [ion binding]; metal-binding site 634453002303 dimer interface [polypeptide binding]; other site 634453002304 Permease; Region: Permease; pfam02405 634453002305 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 634453002306 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453002307 Q-loop/lid; other site 634453002308 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 634453002309 mce related protein; Region: MCE; pfam02470 634453002310 sugar binding site [chemical binding]; other site 634453002311 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 634453002312 Inward rectifier potassium channel; Region: IRK; pfam01007 634453002313 Fusaric acid resistance protein family; Region: FUSC; pfam04632 634453002314 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634453002315 Fusaric acid resistance protein family; Region: FUSC; pfam04632 634453002316 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634453002317 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 634453002318 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 634453002319 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 634453002320 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 634453002321 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 634453002322 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 634453002323 catalytic residues [active] 634453002324 central insert; other site 634453002325 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 634453002326 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 634453002327 heme exporter protein CcmC; Region: ccmC; TIGR01191 634453002328 YciI-like protein; Reviewed; Region: PRK12863 634453002329 EVE domain; Region: EVE; pfam01878 634453002330 Putative phosphatase (DUF442); Region: DUF442; cl17385 634453002331 EcsC protein family; Region: EcsC; pfam12787 634453002332 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 634453002333 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 634453002334 dimerization interface [polypeptide binding]; other site 634453002335 ligand binding site [chemical binding]; other site 634453002336 NADP binding site [chemical binding]; other site 634453002337 catalytic site [active] 634453002338 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 634453002339 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 634453002340 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 634453002341 Protein of unknown function; Region: DUF3971; pfam13116 634453002342 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 634453002343 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 634453002344 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 634453002345 metal binding triad; other site 634453002346 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 634453002347 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 634453002348 metal binding triad; other site 634453002349 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 634453002350 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 634453002351 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 634453002352 catalytic triad [active] 634453002353 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 634453002354 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 634453002355 putative substrate translocation pore; other site 634453002356 RmuC family; Region: RmuC; pfam02646 634453002357 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634453002358 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 634453002359 active site 634453002360 phosphorylation site [posttranslational modification] 634453002361 intermolecular recognition site; other site 634453002362 dimerization interface [polypeptide binding]; other site 634453002363 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 634453002364 DNA binding site [nucleotide binding] 634453002365 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634453002366 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 634453002367 dimerization interface [polypeptide binding]; other site 634453002368 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 634453002369 ATP binding site [chemical binding]; other site 634453002370 Mg2+ binding site [ion binding]; other site 634453002371 G-X-G motif; other site 634453002372 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 634453002373 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 634453002374 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634453002375 HlyD family secretion protein; Region: HlyD_3; pfam13437 634453002376 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 634453002377 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 634453002378 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 634453002379 23S rRNA interface [nucleotide binding]; other site 634453002380 L7/L12 interface [polypeptide binding]; other site 634453002381 putative thiostrepton binding site; other site 634453002382 L25 interface [polypeptide binding]; other site 634453002383 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 634453002384 mRNA/rRNA interface [nucleotide binding]; other site 634453002385 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 634453002386 23S rRNA interface [nucleotide binding]; other site 634453002387 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 634453002388 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 634453002389 L11 interface [polypeptide binding]; other site 634453002390 putative EF-Tu interaction site [polypeptide binding]; other site 634453002391 putative EF-G interaction site [polypeptide binding]; other site 634453002392 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 634453002393 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 634453002394 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 634453002395 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 634453002396 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 634453002397 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 634453002398 RPB1 interaction site [polypeptide binding]; other site 634453002399 RPB11 interaction site [polypeptide binding]; other site 634453002400 RPB10 interaction site [polypeptide binding]; other site 634453002401 RPB3 interaction site [polypeptide binding]; other site 634453002402 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 634453002403 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 634453002404 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 634453002405 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 634453002406 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 634453002407 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 634453002408 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 634453002409 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 634453002410 DNA binding site [nucleotide binding] 634453002411 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 634453002412 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 634453002413 S17 interaction site [polypeptide binding]; other site 634453002414 S8 interaction site; other site 634453002415 16S rRNA interaction site [nucleotide binding]; other site 634453002416 streptomycin interaction site [chemical binding]; other site 634453002417 23S rRNA interaction site [nucleotide binding]; other site 634453002418 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 634453002419 30S ribosomal protein S7; Validated; Region: PRK05302 634453002420 elongation factor Tu; Reviewed; Region: PRK00049 634453002421 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 634453002422 G1 box; other site 634453002423 GEF interaction site [polypeptide binding]; other site 634453002424 GTP/Mg2+ binding site [chemical binding]; other site 634453002425 Switch I region; other site 634453002426 G2 box; other site 634453002427 G3 box; other site 634453002428 Switch II region; other site 634453002429 G4 box; other site 634453002430 G5 box; other site 634453002431 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 634453002432 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 634453002433 Antibiotic Binding Site [chemical binding]; other site 634453002434 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 634453002435 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 634453002436 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 634453002437 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 634453002438 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 634453002439 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 634453002440 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 634453002441 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 634453002442 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 634453002443 putative translocon binding site; other site 634453002444 protein-rRNA interface [nucleotide binding]; other site 634453002445 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 634453002446 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 634453002447 G-X-X-G motif; other site 634453002448 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 634453002449 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 634453002450 23S rRNA interface [nucleotide binding]; other site 634453002451 5S rRNA interface [nucleotide binding]; other site 634453002452 putative antibiotic binding site [chemical binding]; other site 634453002453 L25 interface [polypeptide binding]; other site 634453002454 L27 interface [polypeptide binding]; other site 634453002455 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 634453002456 23S rRNA interface [nucleotide binding]; other site 634453002457 putative translocon interaction site; other site 634453002458 signal recognition particle (SRP54) interaction site; other site 634453002459 L23 interface [polypeptide binding]; other site 634453002460 trigger factor interaction site; other site 634453002461 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 634453002462 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 634453002463 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 634453002464 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 634453002465 RNA binding site [nucleotide binding]; other site 634453002466 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 634453002467 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 634453002468 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 634453002469 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 634453002470 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 634453002471 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 634453002472 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 634453002473 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 634453002474 5S rRNA interface [nucleotide binding]; other site 634453002475 23S rRNA interface [nucleotide binding]; other site 634453002476 L5 interface [polypeptide binding]; other site 634453002477 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 634453002478 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 634453002479 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 634453002480 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 634453002481 23S rRNA binding site [nucleotide binding]; other site 634453002482 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 634453002483 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 634453002484 SecY translocase; Region: SecY; pfam00344 634453002485 adenylate kinase; Reviewed; Region: adk; PRK00279 634453002486 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 634453002487 AMP-binding site [chemical binding]; other site 634453002488 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 634453002489 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 634453002490 30S ribosomal protein S13; Region: bact_S13; TIGR03631 634453002491 30S ribosomal protein S11; Validated; Region: PRK05309 634453002492 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 634453002493 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 634453002494 alphaNTD - beta interaction site [polypeptide binding]; other site 634453002495 alphaNTD homodimer interface [polypeptide binding]; other site 634453002496 alphaNTD - beta' interaction site [polypeptide binding]; other site 634453002497 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 634453002498 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 634453002499 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 634453002500 NMT1-like family; Region: NMT1_2; pfam13379 634453002501 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 634453002502 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 634453002503 dimer interface [polypeptide binding]; other site 634453002504 conserved gate region; other site 634453002505 putative PBP binding loops; other site 634453002506 ABC-ATPase subunit interface; other site 634453002507 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 634453002508 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 634453002509 Walker A/P-loop; other site 634453002510 ATP binding site [chemical binding]; other site 634453002511 Q-loop/lid; other site 634453002512 ABC transporter signature motif; other site 634453002513 Walker B; other site 634453002514 D-loop; other site 634453002515 H-loop/switch region; other site 634453002516 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 634453002517 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 634453002518 Protein export membrane protein; Region: SecD_SecF; cl14618 634453002519 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 634453002520 Protein export membrane protein; Region: SecD_SecF; cl14618 634453002521 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 634453002522 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634453002523 HlyD family secretion protein; Region: HlyD_3; pfam13437 634453002524 putative transporter; Provisional; Region: PRK10504 634453002525 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 634453002526 putative substrate translocation pore; other site 634453002527 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 634453002528 CsbD-like; Region: CsbD; pfam05532 634453002529 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 634453002530 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 634453002531 RNA/DNA hybrid binding site [nucleotide binding]; other site 634453002532 active site 634453002533 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 634453002534 DNA methylase; Region: N6_N4_Mtase; pfam01555 634453002535 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 634453002536 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 634453002537 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 634453002538 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 634453002539 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 634453002540 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 634453002541 Protein of unknown function DUF58; Region: DUF58; pfam01882 634453002542 MoxR-like ATPases [General function prediction only]; Region: COG0714 634453002543 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 634453002544 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 634453002545 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 634453002546 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 634453002547 active site 634453002548 NTP binding site [chemical binding]; other site 634453002549 metal binding triad [ion binding]; metal-binding site 634453002550 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 634453002551 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 634453002552 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634453002553 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453002554 Walker A/P-loop; other site 634453002555 ATP binding site [chemical binding]; other site 634453002556 Q-loop/lid; other site 634453002557 ABC transporter signature motif; other site 634453002558 Walker B; other site 634453002559 D-loop; other site 634453002560 H-loop/switch region; other site 634453002561 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 634453002562 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 634453002563 E3 interaction surface; other site 634453002564 lipoyl attachment site [posttranslational modification]; other site 634453002565 HlyD family secretion protein; Region: HlyD_3; pfam13437 634453002566 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 634453002567 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 634453002568 putative substrate translocation pore; other site 634453002569 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 634453002570 putative active site [active] 634453002571 Ap4A binding site [chemical binding]; other site 634453002572 nudix motif; other site 634453002573 putative metal binding site [ion binding]; other site 634453002574 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 634453002575 NodB motif; other site 634453002576 putative active site [active] 634453002577 putative catalytic site [active] 634453002578 Zn binding site [ion binding]; other site 634453002579 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 634453002580 C-terminal peptidase (prc); Region: prc; TIGR00225 634453002581 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 634453002582 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 634453002583 Catalytic dyad [active] 634453002584 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 634453002585 Peptidase family M23; Region: Peptidase_M23; pfam01551 634453002586 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 634453002587 phosphoglyceromutase; Provisional; Region: PRK05434 634453002588 threonine dehydratase; Provisional; Region: PRK07334 634453002589 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 634453002590 tetramer interface [polypeptide binding]; other site 634453002591 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453002592 catalytic residue [active] 634453002593 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 634453002594 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 634453002595 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 634453002596 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 634453002597 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 634453002598 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 634453002599 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 634453002600 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 634453002601 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 634453002602 ATP-grasp domain; Region: ATP-grasp_4; cl17255 634453002603 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 634453002604 IMP binding site; other site 634453002605 dimer interface [polypeptide binding]; other site 634453002606 partial ornithine binding site; other site 634453002607 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 634453002608 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 634453002609 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 634453002610 catalytic site [active] 634453002611 subunit interface [polypeptide binding]; other site 634453002612 Yqey-like protein; Region: YqeY; pfam09424 634453002613 DNA primase; Validated; Region: dnaG; PRK05667 634453002614 CHC2 zinc finger; Region: zf-CHC2; pfam01807 634453002615 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 634453002616 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 634453002617 active site 634453002618 metal binding site [ion binding]; metal-binding site 634453002619 interdomain interaction site; other site 634453002620 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 634453002621 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 634453002622 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 634453002623 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 634453002624 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634453002625 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 634453002626 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 634453002627 DNA binding residues [nucleotide binding] 634453002628 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 634453002629 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 634453002630 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 634453002631 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 634453002632 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 634453002633 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 634453002634 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 634453002635 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 634453002636 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 634453002637 S-adenosylmethionine binding site [chemical binding]; other site 634453002638 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 634453002639 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 634453002640 SurA N-terminal domain; Region: SurA_N; pfam09312 634453002641 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 634453002642 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 634453002643 OstA-like protein; Region: OstA; cl00844 634453002644 Organic solvent tolerance protein; Region: OstA_C; pfam04453 634453002645 Predicted permeases [General function prediction only]; Region: COG0795 634453002646 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 634453002647 Predicted permeases [General function prediction only]; Region: COG0795 634453002648 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 634453002649 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 634453002650 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 634453002651 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453002652 Walker A/P-loop; other site 634453002653 ATP binding site [chemical binding]; other site 634453002654 Q-loop/lid; other site 634453002655 ABC transporter signature motif; other site 634453002656 Walker B; other site 634453002657 D-loop; other site 634453002658 H-loop/switch region; other site 634453002659 Transcriptional regulators [Transcription]; Region: GntR; COG1802 634453002660 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 634453002661 DNA-binding site [nucleotide binding]; DNA binding site 634453002662 FCD domain; Region: FCD; pfam07729 634453002663 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 634453002664 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 634453002665 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 634453002666 Switch I; other site 634453002667 Switch II; other site 634453002668 septum formation inhibitor; Reviewed; Region: minC; PRK05177 634453002669 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 634453002670 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 634453002671 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 634453002672 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 634453002673 C-terminal domain interface [polypeptide binding]; other site 634453002674 GSH binding site (G-site) [chemical binding]; other site 634453002675 dimer interface [polypeptide binding]; other site 634453002676 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 634453002677 N-terminal domain interface [polypeptide binding]; other site 634453002678 dimer interface [polypeptide binding]; other site 634453002679 substrate binding pocket (H-site) [chemical binding]; other site 634453002680 Predicted flavoproteins [General function prediction only]; Region: COG2081 634453002681 Predicted methyltransferases [General function prediction only]; Region: COG0313 634453002682 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 634453002683 putative SAM binding site [chemical binding]; other site 634453002684 putative homodimer interface [polypeptide binding]; other site 634453002685 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 634453002686 putative ligand binding site [chemical binding]; other site 634453002687 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 634453002688 TPR motif; other site 634453002689 TPR repeat; Region: TPR_11; pfam13414 634453002690 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 634453002691 TPR motif; other site 634453002692 binding surface 634453002693 TPR repeat; Region: TPR_11; pfam13414 634453002694 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 634453002695 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 634453002696 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 634453002697 S-formylglutathione hydrolase; Region: PLN02442 634453002698 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 634453002699 putative active site [active] 634453002700 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 634453002701 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 634453002702 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 634453002703 Walker A/P-loop; other site 634453002704 ATP binding site [chemical binding]; other site 634453002705 Q-loop/lid; other site 634453002706 ABC transporter signature motif; other site 634453002707 Walker B; other site 634453002708 D-loop; other site 634453002709 H-loop/switch region; other site 634453002710 zinc-ribbon domain; Region: zinc_ribbon_4; pfam13717 634453002711 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 634453002712 active site 634453002713 phosphorylation site [posttranslational modification] 634453002714 intermolecular recognition site; other site 634453002715 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 634453002716 active site 634453002717 phosphorylation site [posttranslational modification] 634453002718 intermolecular recognition site; other site 634453002719 dimerization interface [polypeptide binding]; other site 634453002720 Winged helix-turn helix; Region: HTH_29; pfam13551 634453002721 Integrase core domain; Region: rve; pfam00665 634453002722 Integrase core domain; Region: rve_3; pfam13683 634453002723 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634453002724 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 634453002725 ATP binding site [chemical binding]; other site 634453002726 Mg2+ binding site [ion binding]; other site 634453002727 G-X-G motif; other site 634453002728 Response regulator receiver domain; Region: Response_reg; pfam00072 634453002729 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 634453002730 active site 634453002731 phosphorylation site [posttranslational modification] 634453002732 intermolecular recognition site; other site 634453002733 dimerization interface [polypeptide binding]; other site 634453002734 PAS fold; Region: PAS_4; pfam08448 634453002735 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 634453002736 dimer interface [polypeptide binding]; other site 634453002737 phosphorylation site [posttranslational modification] 634453002738 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 634453002739 ATP binding site [chemical binding]; other site 634453002740 Mg2+ binding site [ion binding]; other site 634453002741 G-X-G motif; other site 634453002742 Response regulator receiver domain; Region: Response_reg; pfam00072 634453002743 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 634453002744 active site 634453002745 phosphorylation site [posttranslational modification] 634453002746 intermolecular recognition site; other site 634453002747 dimerization interface [polypeptide binding]; other site 634453002748 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 634453002749 active site 634453002750 HslU subunit interaction site [polypeptide binding]; other site 634453002751 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 634453002752 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 634453002753 Walker A motif; other site 634453002754 ATP binding site [chemical binding]; other site 634453002755 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 634453002756 Walker B motif; other site 634453002757 arginine finger; other site 634453002758 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 634453002759 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 634453002760 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 634453002761 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 634453002762 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634453002763 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634453002764 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 634453002765 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 634453002766 catalytic loop [active] 634453002767 iron binding site [ion binding]; other site 634453002768 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 634453002769 Cytochrome c; Region: Cytochrom_C; pfam00034 634453002770 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634453002771 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634453002772 Cytochrome c; Region: Cytochrom_C; pfam00034 634453002773 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 634453002774 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 634453002775 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 634453002776 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 634453002777 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 634453002778 23S rRNA binding site [nucleotide binding]; other site 634453002779 L21 binding site [polypeptide binding]; other site 634453002780 L13 binding site [polypeptide binding]; other site 634453002781 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 634453002782 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 634453002783 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 634453002784 dimer interface [polypeptide binding]; other site 634453002785 motif 1; other site 634453002786 active site 634453002787 motif 2; other site 634453002788 motif 3; other site 634453002789 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 634453002790 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 634453002791 putative tRNA-binding site [nucleotide binding]; other site 634453002792 B3/4 domain; Region: B3_4; pfam03483 634453002793 tRNA synthetase B5 domain; Region: B5; smart00874 634453002794 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 634453002795 motif 1; other site 634453002796 dimer interface [polypeptide binding]; other site 634453002797 motif 3; other site 634453002798 motif 2; other site 634453002799 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 634453002800 PBP superfamily domain; Region: PBP_like_2; cl17296 634453002801 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 634453002802 peptide binding site [polypeptide binding]; other site 634453002803 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 634453002804 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 634453002805 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 634453002806 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 634453002807 ligand binding site [chemical binding]; other site 634453002808 flexible hinge region; other site 634453002809 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 634453002810 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 634453002811 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 634453002812 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 634453002813 RNA binding surface [nucleotide binding]; other site 634453002814 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 634453002815 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 634453002816 G1 box; other site 634453002817 putative GEF interaction site [polypeptide binding]; other site 634453002818 GTP/Mg2+ binding site [chemical binding]; other site 634453002819 Switch I region; other site 634453002820 G2 box; other site 634453002821 G3 box; other site 634453002822 Switch II region; other site 634453002823 G4 box; other site 634453002824 G5 box; other site 634453002825 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 634453002826 hypothetical protein; Provisional; Region: PRK08999 634453002827 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 634453002828 tartrate dehydrogenase; Region: TTC; TIGR02089 634453002829 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 634453002830 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 634453002831 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 634453002832 active site 634453002833 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 634453002834 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 634453002835 S-adenosylmethionine binding site [chemical binding]; other site 634453002836 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 634453002837 Part of AAA domain; Region: AAA_19; pfam13245 634453002838 Family description; Region: UvrD_C_2; pfam13538 634453002839 DNA repair protein radc; Region: radc; TIGR00608 634453002840 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 634453002841 DNA repair protein radc; Region: radc; TIGR00608 634453002842 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 634453002843 MPN+ (JAMM) motif; other site 634453002844 Zinc-binding site [ion binding]; other site 634453002845 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 634453002846 ATP-grasp domain; Region: ATP-grasp; pfam02222 634453002847 AIR carboxylase; Region: AIRC; pfam00731 634453002848 Protein of unknown function (DUF465); Region: DUF465; cl01070 634453002849 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 634453002850 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 634453002851 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 634453002852 putative dimer interface [polypeptide binding]; other site 634453002853 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 634453002854 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 634453002855 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 634453002856 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 634453002857 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 634453002858 Protein export membrane protein; Region: SecD_SecF; pfam02355 634453002859 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 634453002860 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 634453002861 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 634453002862 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 634453002863 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 634453002864 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 634453002865 Class I ribonucleotide reductase; Region: RNR_I; cd01679 634453002866 active site 634453002867 dimer interface [polypeptide binding]; other site 634453002868 catalytic residues [active] 634453002869 effector binding site; other site 634453002870 R2 peptide binding site; other site 634453002871 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 634453002872 dimer interface [polypeptide binding]; other site 634453002873 putative radical transfer pathway; other site 634453002874 diiron center [ion binding]; other site 634453002875 tyrosyl radical; other site 634453002876 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 634453002877 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 634453002878 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 634453002879 substrate binding pocket [chemical binding]; other site 634453002880 chain length determination region; other site 634453002881 substrate-Mg2+ binding site; other site 634453002882 catalytic residues [active] 634453002883 aspartate-rich region 1; other site 634453002884 active site lid residues [active] 634453002885 aspartate-rich region 2; other site 634453002886 glutamate racemase; Provisional; Region: PRK00865 634453002887 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634453002888 active site 634453002889 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 634453002890 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 634453002891 dimer interface [polypeptide binding]; other site 634453002892 active site 634453002893 citrylCoA binding site [chemical binding]; other site 634453002894 NADH binding [chemical binding]; other site 634453002895 cationic pore residues; other site 634453002896 oxalacetate/citrate binding site [chemical binding]; other site 634453002897 coenzyme A binding site [chemical binding]; other site 634453002898 catalytic triad [active] 634453002899 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 634453002900 catalytic core [active] 634453002901 chorismate mutase; Provisional; Region: PRK09239 634453002902 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 634453002903 active site 634453002904 metal binding site [ion binding]; metal-binding site 634453002905 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 634453002906 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 634453002907 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 634453002908 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 634453002909 AAA domain; Region: AAA_23; pfam13476 634453002910 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 634453002911 Walker A/P-loop; other site 634453002912 ATP binding site [chemical binding]; other site 634453002913 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 634453002914 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 634453002915 ABC transporter signature motif; other site 634453002916 Walker B; other site 634453002917 D-loop; other site 634453002918 H-loop/switch region; other site 634453002919 Thioredoxin; Region: Thioredoxin_4; pfam13462 634453002920 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 634453002921 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 634453002922 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 634453002923 Transporter associated domain; Region: CorC_HlyC; smart01091 634453002924 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 634453002925 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 634453002926 PhoH-like protein; Region: PhoH; pfam02562 634453002927 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 634453002928 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 634453002929 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 634453002930 FeS/SAM binding site; other site 634453002931 TRAM domain; Region: TRAM; cl01282 634453002932 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 634453002933 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 634453002934 putative acyl-acceptor binding pocket; other site 634453002935 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 634453002936 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634453002937 Surface antigen; Region: Bac_surface_Ag; pfam01103 634453002938 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 634453002939 Family of unknown function (DUF490); Region: DUF490; pfam04357 634453002940 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 634453002941 putative catalytic site [active] 634453002942 putative phosphate binding site [ion binding]; other site 634453002943 active site 634453002944 metal binding site A [ion binding]; metal-binding site 634453002945 DNA binding site [nucleotide binding] 634453002946 putative AP binding site [nucleotide binding]; other site 634453002947 putative metal binding site B [ion binding]; other site 634453002948 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 634453002949 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 634453002950 active site 634453002951 dimer interface [polypeptide binding]; other site 634453002952 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 634453002953 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 634453002954 GIY-YIG motif/motif A; other site 634453002955 active site 634453002956 catalytic site [active] 634453002957 putative DNA binding site [nucleotide binding]; other site 634453002958 metal binding site [ion binding]; metal-binding site 634453002959 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 634453002960 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 634453002961 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 634453002962 MoaE interaction surface [polypeptide binding]; other site 634453002963 MoeB interaction surface [polypeptide binding]; other site 634453002964 thiocarboxylated glycine; other site 634453002965 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 634453002966 MoaE homodimer interface [polypeptide binding]; other site 634453002967 MoaD interaction [polypeptide binding]; other site 634453002968 active site residues [active] 634453002969 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 634453002970 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 634453002971 inhibitor-cofactor binding pocket; inhibition site 634453002972 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453002973 catalytic residue [active] 634453002974 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 634453002975 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 634453002976 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634453002977 catalytic residue [active] 634453002978 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 634453002979 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 634453002980 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 634453002981 S-adenosylmethionine binding site [chemical binding]; other site 634453002982 AAA domain; Region: AAA_26; pfam13500 634453002983 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 634453002984 LexA repressor; Validated; Region: PRK00215 634453002985 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 634453002986 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 634453002987 Catalytic site [active] 634453002988 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 634453002989 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 634453002990 dimer interface [polypeptide binding]; other site 634453002991 putative functional site; other site 634453002992 putative MPT binding site; other site 634453002993 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 634453002994 Septum formation initiator; Region: DivIC; cl17659 634453002995 enolase; Provisional; Region: eno; PRK00077 634453002996 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 634453002997 dimer interface [polypeptide binding]; other site 634453002998 metal binding site [ion binding]; metal-binding site 634453002999 substrate binding pocket [chemical binding]; other site 634453003000 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 634453003001 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 634453003002 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 634453003003 thiS-thiF/thiG interaction site; other site 634453003004 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 634453003005 ThiS interaction site; other site 634453003006 putative active site [active] 634453003007 tetramer interface [polypeptide binding]; other site 634453003008 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 634453003009 thiamine phosphate binding site [chemical binding]; other site 634453003010 active site 634453003011 pyrophosphate binding site [ion binding]; other site 634453003012 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 634453003013 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 634453003014 generic binding surface II; other site 634453003015 ssDNA binding site; other site 634453003016 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 634453003017 ATP binding site [chemical binding]; other site 634453003018 putative Mg++ binding site [ion binding]; other site 634453003019 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 634453003020 nucleotide binding region [chemical binding]; other site 634453003021 ATP-binding site [chemical binding]; other site 634453003022 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 634453003023 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 634453003024 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 634453003025 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 634453003026 ATP binding site [chemical binding]; other site 634453003027 putative Mg++ binding site [ion binding]; other site 634453003028 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 634453003029 nucleotide binding region [chemical binding]; other site 634453003030 ATP-binding site [chemical binding]; other site 634453003031 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 634453003032 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 634453003033 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 634453003034 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 634453003035 tyrosine decarboxylase; Region: PLN02880 634453003036 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 634453003037 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453003038 catalytic residue [active] 634453003039 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 634453003040 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 634453003041 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 634453003042 metal ion-dependent adhesion site (MIDAS); other site 634453003043 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 634453003044 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 634453003045 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 634453003046 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 634453003047 HSP70 interaction site [polypeptide binding]; other site 634453003048 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 634453003049 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 634453003050 lipoate-protein ligase B; Provisional; Region: PRK14341 634453003051 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 634453003052 active site 634453003053 tetramer interface; other site 634453003054 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 634453003055 active site 634453003056 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 634453003057 substrate binding site [chemical binding]; other site 634453003058 metal binding site [ion binding]; metal-binding site 634453003059 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 634453003060 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 634453003061 FeS/SAM binding site; other site 634453003062 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 634453003063 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 634453003064 S-adenosylmethionine binding site [chemical binding]; other site 634453003065 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 634453003066 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634453003067 active site 634453003068 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 634453003069 GSH binding site [chemical binding]; other site 634453003070 catalytic residues [active] 634453003071 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 634453003072 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 634453003073 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 634453003074 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 634453003075 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 634453003076 S-adenosylmethionine binding site [chemical binding]; other site 634453003077 aspartate kinase; Reviewed; Region: PRK06635 634453003078 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 634453003079 putative nucleotide binding site [chemical binding]; other site 634453003080 putative catalytic residues [active] 634453003081 putative Mg ion binding site [ion binding]; other site 634453003082 putative aspartate binding site [chemical binding]; other site 634453003083 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 634453003084 putative allosteric regulatory site; other site 634453003085 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 634453003086 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 634453003087 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 634453003088 FMN binding site [chemical binding]; other site 634453003089 substrate binding site [chemical binding]; other site 634453003090 putative catalytic residue [active] 634453003091 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 634453003092 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 634453003093 non-specific DNA binding site [nucleotide binding]; other site 634453003094 salt bridge; other site 634453003095 sequence-specific DNA binding site [nucleotide binding]; other site 634453003096 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 634453003097 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 634453003098 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 634453003099 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 634453003100 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 634453003101 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 634453003102 dimer interface [polypeptide binding]; other site 634453003103 motif 1; other site 634453003104 active site 634453003105 motif 2; other site 634453003106 motif 3; other site 634453003107 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 634453003108 anticodon binding site; other site 634453003109 peptide chain release factor 1; Validated; Region: prfA; PRK00591 634453003110 PCRF domain; Region: PCRF; pfam03462 634453003111 RF-1 domain; Region: RF-1; pfam00472 634453003112 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 634453003113 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 634453003114 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 634453003115 mce related protein; Region: MCE; pfam02470 634453003116 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 634453003117 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 634453003118 ATP-grasp domain; Region: ATP-grasp_4; cl17255 634453003119 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 634453003120 Transglycosylase SLT domain; Region: SLT_2; pfam13406 634453003121 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 634453003122 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634453003123 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 634453003124 Sporulation related domain; Region: SPOR; cl10051 634453003125 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 634453003126 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 634453003127 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 634453003128 thymidylate kinase; Validated; Region: tmk; PRK00698 634453003129 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 634453003130 TMP-binding site; other site 634453003131 ATP-binding site [chemical binding]; other site 634453003132 DNA polymerase III subunit delta'; Validated; Region: PRK07471 634453003133 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 634453003134 Walker A motif; other site 634453003135 ATP binding site [chemical binding]; other site 634453003136 Walker B motif; other site 634453003137 arginine finger; other site 634453003138 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 634453003139 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 634453003140 active site 634453003141 HIGH motif; other site 634453003142 KMSKS motif; other site 634453003143 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 634453003144 tRNA binding surface [nucleotide binding]; other site 634453003145 anticodon binding site; other site 634453003146 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 634453003147 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 634453003148 active site 634453003149 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 634453003150 putative hydrolase; Provisional; Region: PRK02113 634453003151 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 634453003152 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 634453003153 Ligand Binding Site [chemical binding]; other site 634453003154 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 634453003155 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 634453003156 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 634453003157 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 634453003158 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 634453003159 NAD binding site [chemical binding]; other site 634453003160 homotetramer interface [polypeptide binding]; other site 634453003161 homodimer interface [polypeptide binding]; other site 634453003162 substrate binding site [chemical binding]; other site 634453003163 active site 634453003164 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 634453003165 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 634453003166 Tetramer interface [polypeptide binding]; other site 634453003167 active site 634453003168 FMN-binding site [chemical binding]; other site 634453003169 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 634453003170 malate:quinone oxidoreductase; Validated; Region: PRK05257 634453003171 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 634453003172 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 634453003173 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 634453003174 Ligand Binding Site [chemical binding]; other site 634453003175 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 634453003176 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 634453003177 biotin synthase; Region: bioB; TIGR00433 634453003178 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 634453003179 FeS/SAM binding site; other site 634453003180 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 634453003181 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 634453003182 Domain of unknown function (DUF333); Region: DUF333; pfam03891 634453003183 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 634453003184 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 634453003185 Active Sites [active] 634453003186 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 634453003187 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 634453003188 Active Sites [active] 634453003189 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 634453003190 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 634453003191 G1 box; other site 634453003192 GTP/Mg2+ binding site [chemical binding]; other site 634453003193 G2 box; other site 634453003194 Switch I region; other site 634453003195 G3 box; other site 634453003196 Switch II region; other site 634453003197 G4 box; other site 634453003198 G5 box; other site 634453003199 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 634453003200 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 634453003201 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 634453003202 ligand-binding site [chemical binding]; other site 634453003203 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 634453003204 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 634453003205 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 634453003206 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 634453003207 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 634453003208 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 634453003209 putative acyl-acceptor binding pocket; other site 634453003210 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 634453003211 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 634453003212 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 634453003213 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 634453003214 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 634453003215 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 634453003216 putative acyl-acceptor binding pocket; other site 634453003217 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 634453003218 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 634453003219 active site 634453003220 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 634453003221 putative amphipathic alpha helix; other site 634453003222 YceG-like family; Region: YceG; pfam02618 634453003223 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 634453003224 dimerization interface [polypeptide binding]; other site 634453003225 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 634453003226 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 634453003227 dimer interface [polypeptide binding]; other site 634453003228 active site 634453003229 acyl carrier protein; Provisional; Region: acpP; PRK00982 634453003230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634453003231 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 634453003232 NAD(P) binding site [chemical binding]; other site 634453003233 active site 634453003234 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 634453003235 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 634453003236 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 634453003237 putative active site [active] 634453003238 Methyltransferase domain; Region: Methyltransf_31; pfam13847 634453003239 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 634453003240 S-adenosylmethionine binding site [chemical binding]; other site 634453003241 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 634453003242 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 634453003243 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634453003244 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 634453003245 catalytic residues [active] 634453003246 catalytic nucleophile [active] 634453003247 Presynaptic Site I dimer interface [polypeptide binding]; other site 634453003248 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634453003249 Synaptic Flat tetramer interface [polypeptide binding]; other site 634453003250 Synaptic Site I dimer interface [polypeptide binding]; other site 634453003251 DNA binding site [nucleotide binding] 634453003252 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 634453003253 DNA-binding interface [nucleotide binding]; DNA binding site 634453003254 Winged helix-turn helix; Region: HTH_29; pfam13551 634453003255 Helix-turn-helix domain; Region: HTH_28; pfam13518 634453003256 Homeodomain-like domain; Region: HTH_32; pfam13565 634453003257 Integrase core domain; Region: rve; pfam00665 634453003258 Integrase core domain; Region: rve_3; cl15866 634453003259 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 634453003260 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 634453003261 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 634453003262 DNA-binding site [nucleotide binding]; DNA binding site 634453003263 RNA-binding motif; other site 634453003264 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 634453003265 DNA-binding site [nucleotide binding]; DNA binding site 634453003266 RNA-binding motif; other site 634453003267 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 634453003268 SmpB-tmRNA interface; other site 634453003269 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 634453003270 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 634453003271 dimer interface [polypeptide binding]; other site 634453003272 active site 634453003273 catalytic residue [active] 634453003274 prephenate dehydratase; Provisional; Region: PRK11899 634453003275 Prephenate dehydratase; Region: PDT; pfam00800 634453003276 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 634453003277 putative L-Phe binding site [chemical binding]; other site 634453003278 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 634453003279 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 634453003280 Ligand binding site; other site 634453003281 oligomer interface; other site 634453003282 Cytochrome c; Region: Cytochrom_C; cl11414 634453003283 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 634453003284 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 634453003285 active site 634453003286 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 634453003287 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 634453003288 ligand binding site [chemical binding]; other site 634453003289 NAD binding site [chemical binding]; other site 634453003290 tetramer interface [polypeptide binding]; other site 634453003291 catalytic site [active] 634453003292 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 634453003293 L-serine binding site [chemical binding]; other site 634453003294 ACT domain interface; other site 634453003295 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 634453003296 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 634453003297 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 634453003298 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 634453003299 cystathionine beta-lyase; Provisional; Region: PRK05967 634453003300 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 634453003301 homodimer interface [polypeptide binding]; other site 634453003302 substrate-cofactor binding pocket; other site 634453003303 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453003304 catalytic residue [active] 634453003305 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 634453003306 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 634453003307 active site residue [active] 634453003308 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 634453003309 active site residue [active] 634453003310 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 634453003311 Domain of unknown function DUF20; Region: UPF0118; pfam01594 634453003312 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 634453003313 putative catalytic site [active] 634453003314 putative metal binding site [ion binding]; other site 634453003315 putative phosphate binding site [ion binding]; other site 634453003316 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 634453003317 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 634453003318 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 634453003319 putative active site [active] 634453003320 catalytic site [active] 634453003321 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 634453003322 putative active site [active] 634453003323 catalytic site [active] 634453003324 hypothetical protein; Reviewed; Region: PRK12497 634453003325 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 634453003326 putative GSH binding site [chemical binding]; other site 634453003327 catalytic residues [active] 634453003328 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 634453003329 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 634453003330 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 634453003331 dimerization interface [polypeptide binding]; other site 634453003332 ATP binding site [chemical binding]; other site 634453003333 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 634453003334 dimerization interface [polypeptide binding]; other site 634453003335 ATP binding site [chemical binding]; other site 634453003336 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 634453003337 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 634453003338 putative active site [active] 634453003339 catalytic triad [active] 634453003340 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 634453003341 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 634453003342 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 634453003343 ATP binding site [chemical binding]; other site 634453003344 active site 634453003345 substrate binding site [chemical binding]; other site 634453003346 adenylosuccinate lyase; Provisional; Region: PRK07492 634453003347 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 634453003348 tetramer interface [polypeptide binding]; other site 634453003349 active site 634453003350 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 634453003351 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 634453003352 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 634453003353 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 634453003354 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634453003355 catalytic residue [active] 634453003356 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 634453003357 tetramer interfaces [polypeptide binding]; other site 634453003358 binuclear metal-binding site [ion binding]; other site 634453003359 Competence-damaged protein; Region: CinA; pfam02464 634453003360 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 634453003361 putative coenzyme Q binding site [chemical binding]; other site 634453003362 lipoyl synthase; Provisional; Region: PRK05481 634453003363 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 634453003364 FeS/SAM binding site; other site 634453003365 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 634453003366 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634453003367 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 634453003368 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 634453003369 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 634453003370 E3 interaction surface; other site 634453003371 lipoyl attachment site [posttranslational modification]; other site 634453003372 e3 binding domain; Region: E3_binding; pfam02817 634453003373 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 634453003374 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 634453003375 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 634453003376 E3 interaction surface; other site 634453003377 lipoyl attachment site [posttranslational modification]; other site 634453003378 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 634453003379 alpha subunit interface [polypeptide binding]; other site 634453003380 TPP binding site [chemical binding]; other site 634453003381 heterodimer interface [polypeptide binding]; other site 634453003382 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634453003383 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 634453003384 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 634453003385 tetramer interface [polypeptide binding]; other site 634453003386 TPP-binding site [chemical binding]; other site 634453003387 heterodimer interface [polypeptide binding]; other site 634453003388 phosphorylation loop region [posttranslational modification] 634453003389 molybdenum cofactor biosynthesis protein MoaC; Provisional; Region: moaC; PRK09364 634453003390 trimer interface [polypeptide binding]; other site 634453003391 dimer interface [polypeptide binding]; other site 634453003392 putative active site [active] 634453003393 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 634453003394 active site 634453003395 ribulose/triose binding site [chemical binding]; other site 634453003396 phosphate binding site [ion binding]; other site 634453003397 substrate (anthranilate) binding pocket [chemical binding]; other site 634453003398 product (indole) binding pocket [chemical binding]; other site 634453003399 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 634453003400 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 634453003401 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 634453003402 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 634453003403 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 634453003404 glutamine binding [chemical binding]; other site 634453003405 catalytic triad [active] 634453003406 anthranilate synthase component I; Provisional; Region: PRK13573 634453003407 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 634453003408 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 634453003409 SurA N-terminal domain; Region: SurA_N_3; cl07813 634453003410 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 634453003411 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 634453003412 triosephosphate isomerase; Provisional; Region: PRK14565 634453003413 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 634453003414 substrate binding site [chemical binding]; other site 634453003415 dimer interface [polypeptide binding]; other site 634453003416 catalytic triad [active] 634453003417 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 634453003418 CTP synthetase; Validated; Region: pyrG; PRK05380 634453003419 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 634453003420 Catalytic site [active] 634453003421 active site 634453003422 UTP binding site [chemical binding]; other site 634453003423 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 634453003424 active site 634453003425 putative oxyanion hole; other site 634453003426 catalytic triad [active] 634453003427 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 634453003428 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 634453003429 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 634453003430 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 634453003431 ATP binding site [chemical binding]; other site 634453003432 Mg2+ binding site [ion binding]; other site 634453003433 G-X-G motif; other site 634453003434 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 634453003435 anchoring element; other site 634453003436 dimer interface [polypeptide binding]; other site 634453003437 ATP binding site [chemical binding]; other site 634453003438 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 634453003439 active site 634453003440 putative metal-binding site [ion binding]; other site 634453003441 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 634453003442 recombination protein F; Reviewed; Region: recF; PRK00064 634453003443 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453003444 Walker A/P-loop; other site 634453003445 ATP binding site [chemical binding]; other site 634453003446 Q-loop/lid; other site 634453003447 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453003448 ABC transporter signature motif; other site 634453003449 Walker B; other site 634453003450 D-loop; other site 634453003451 H-loop/switch region; other site 634453003452 DNA polymerase III subunit beta; Validated; Region: PRK05643 634453003453 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 634453003454 putative DNA binding surface [nucleotide binding]; other site 634453003455 dimer interface [polypeptide binding]; other site 634453003456 beta-clamp/clamp loader binding surface; other site 634453003457 beta-clamp/translesion DNA polymerase binding surface; other site 634453003458 DnaA N-terminal domain; Region: DnaA_N; pfam11638 634453003459 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 634453003460 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 634453003461 Walker A motif; other site 634453003462 ATP binding site [chemical binding]; other site 634453003463 Walker B motif; other site 634453003464 arginine finger; other site 634453003465 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 634453003466 DnaA box-binding interface [nucleotide binding]; other site 634453003467 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 634453003468 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 634453003469 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 634453003470 DNA binding site [nucleotide binding] 634453003471 catalytic residue [active] 634453003472 H2TH interface [polypeptide binding]; other site 634453003473 putative catalytic residues [active] 634453003474 turnover-facilitating residue; other site 634453003475 intercalation triad [nucleotide binding]; other site 634453003476 8OG recognition residue [nucleotide binding]; other site 634453003477 putative reading head residues; other site 634453003478 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 634453003479 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 634453003480 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 634453003481 S-adenosylmethionine binding site [chemical binding]; other site 634453003482 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 634453003483 Flavoprotein; Region: Flavoprotein; pfam02441 634453003484 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 634453003485 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 634453003486 trimer interface [polypeptide binding]; other site 634453003487 active site 634453003488 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 634453003489 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 634453003490 dimer interface [polypeptide binding]; other site 634453003491 conserved gate region; other site 634453003492 putative PBP binding loops; other site 634453003493 ABC-ATPase subunit interface; other site 634453003494 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 634453003495 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 634453003496 Walker A/P-loop; other site 634453003497 ATP binding site [chemical binding]; other site 634453003498 Q-loop/lid; other site 634453003499 ABC transporter signature motif; other site 634453003500 Walker B; other site 634453003501 D-loop; other site 634453003502 H-loop/switch region; other site 634453003503 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 634453003504 methionine sulfoxide reductase A; Provisional; Region: PRK14054 634453003505 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 634453003506 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 634453003507 HIGH motif; other site 634453003508 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 634453003509 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 634453003510 active site 634453003511 KMSKS motif; other site 634453003512 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 634453003513 tRNA binding surface [nucleotide binding]; other site 634453003514 anticodon binding site; other site 634453003515 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 634453003516 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 634453003517 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 634453003518 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 634453003519 Hint domain; Region: Hint_2; pfam13403 634453003520 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 634453003521 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634453003522 NAD(P) binding site [chemical binding]; other site 634453003523 active site 634453003524 thiamine monophosphate kinase; Provisional; Region: PRK05731 634453003525 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 634453003526 ATP binding site [chemical binding]; other site 634453003527 dimerization interface [polypeptide binding]; other site 634453003528 transcription antitermination factor NusB; Region: nusB; TIGR01951 634453003529 putative RNA binding site [nucleotide binding]; other site 634453003530 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 634453003531 ATP cone domain; Region: ATP-cone; pfam03477 634453003532 Protein of unknown function (DUF461); Region: DUF461; pfam04314 634453003533 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 634453003534 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 634453003535 N- and C-terminal domain interface [polypeptide binding]; other site 634453003536 active site 634453003537 MgATP binding site [chemical binding]; other site 634453003538 catalytic site [active] 634453003539 metal binding site [ion binding]; metal-binding site 634453003540 glycerol binding site [chemical binding]; other site 634453003541 homotetramer interface [polypeptide binding]; other site 634453003542 homodimer interface [polypeptide binding]; other site 634453003543 FBP binding site [chemical binding]; other site 634453003544 protein IIAGlc interface [polypeptide binding]; other site 634453003545 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 634453003546 amphipathic channel; other site 634453003547 Asn-Pro-Ala signature motifs; other site 634453003548 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 634453003549 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 634453003550 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 634453003551 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 634453003552 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 634453003553 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 634453003554 ATP binding site [chemical binding]; other site 634453003555 putative Mg++ binding site [ion binding]; other site 634453003556 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 634453003557 nucleotide binding region [chemical binding]; other site 634453003558 ATP-binding site [chemical binding]; other site 634453003559 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 634453003560 HRDC domain; Region: HRDC; pfam00570 634453003561 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 634453003562 ligand binding site [chemical binding]; other site 634453003563 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 634453003564 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453003565 Walker A/P-loop; other site 634453003566 ATP binding site [chemical binding]; other site 634453003567 Q-loop/lid; other site 634453003568 ABC transporter signature motif; other site 634453003569 Walker B; other site 634453003570 D-loop; other site 634453003571 H-loop/switch region; other site 634453003572 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 634453003573 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453003574 Walker A/P-loop; other site 634453003575 ATP binding site [chemical binding]; other site 634453003576 Q-loop/lid; other site 634453003577 ABC transporter signature motif; other site 634453003578 Walker B; other site 634453003579 D-loop; other site 634453003580 H-loop/switch region; other site 634453003581 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 634453003582 Histidine kinase; Region: HisKA_2; pfam07568 634453003583 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 634453003584 ATP binding site [chemical binding]; other site 634453003585 Mg2+ binding site [ion binding]; other site 634453003586 G-X-G motif; other site 634453003587 RNA polymerase sigma factor; Provisional; Region: PRK12547 634453003588 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634453003589 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 634453003590 DNA binding residues [nucleotide binding] 634453003591 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634453003592 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 634453003593 DNA binding residues [nucleotide binding] 634453003594 two-component response regulator; Provisional; Region: PRK09191 634453003595 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 634453003596 active site 634453003597 phosphorylation site [posttranslational modification] 634453003598 intermolecular recognition site; other site 634453003599 dimerization interface [polypeptide binding]; other site 634453003600 ABC transporter ATPase component; Reviewed; Region: PRK11147 634453003601 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634453003602 ABC transporter; Region: ABC_tran_2; pfam12848 634453003603 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634453003604 trehalase; Provisional; Region: treF; PRK13270 634453003605 Trehalase; Region: Trehalase; cl17346 634453003606 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 634453003607 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 634453003608 substrate binding site [chemical binding]; other site 634453003609 catalytic Zn binding site [ion binding]; other site 634453003610 NAD binding site [chemical binding]; other site 634453003611 structural Zn binding site [ion binding]; other site 634453003612 dimer interface [polypeptide binding]; other site 634453003613 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 634453003614 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 634453003615 PhnA protein; Region: PhnA; pfam03831 634453003616 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 634453003617 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 634453003618 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 634453003619 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 634453003620 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 634453003621 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 634453003622 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 634453003623 amidohydrolase; Provisional; Region: PRK12393 634453003624 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 634453003625 active site 634453003626 putative substrate binding pocket [chemical binding]; other site 634453003627 NMT1/THI5 like; Region: NMT1; pfam09084 634453003628 Predicted small integral membrane protein (DUF2165); Region: DUF2165; pfam09933 634453003629 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 634453003630 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 634453003631 Walker A/P-loop; other site 634453003632 ATP binding site [chemical binding]; other site 634453003633 Q-loop/lid; other site 634453003634 ABC transporter signature motif; other site 634453003635 Walker B; other site 634453003636 D-loop; other site 634453003637 H-loop/switch region; other site 634453003638 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 634453003639 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 634453003640 dimer interface [polypeptide binding]; other site 634453003641 ABC-ATPase subunit interface; other site 634453003642 putative PBP binding loops; other site 634453003643 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 634453003644 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 634453003645 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 634453003646 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 634453003647 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 634453003648 active site 634453003649 putative substrate binding pocket [chemical binding]; other site 634453003650 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 634453003651 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 634453003652 allantoate amidohydrolase; Reviewed; Region: PRK09290 634453003653 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 634453003654 active site 634453003655 metal binding site [ion binding]; metal-binding site 634453003656 dimer interface [polypeptide binding]; other site 634453003657 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 634453003658 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634453003659 catalytic residue [active] 634453003660 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 634453003661 SnoaL-like domain; Region: SnoaL_3; pfam13474 634453003662 Protein of unknown function (DUF4089); Region: DUF4089; pfam13318 634453003663 amidase; Provisional; Region: PRK09201 634453003664 Amidase; Region: Amidase; pfam01425 634453003665 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 634453003666 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 634453003667 XdhC Rossmann domain; Region: XdhC_C; pfam13478 634453003668 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 634453003669 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 634453003670 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634453003671 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 634453003672 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 634453003673 catalytic loop [active] 634453003674 iron binding site [ion binding]; other site 634453003675 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 634453003676 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 634453003677 xanthine permease; Region: pbuX; TIGR03173 634453003678 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 634453003679 active site 634453003680 homotetramer interface [polypeptide binding]; other site 634453003681 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 634453003682 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 634453003683 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 634453003684 active site 634453003685 catalytic site [active] 634453003686 tetramer interface [polypeptide binding]; other site 634453003687 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 634453003688 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 634453003689 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453003690 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634453003691 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 634453003692 dimerization interface [polypeptide binding]; other site 634453003693 guanine deaminase; Provisional; Region: PRK09228 634453003694 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 634453003695 active site 634453003696 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 634453003697 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 634453003698 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634453003699 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 634453003700 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634453003701 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 634453003702 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 634453003703 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634453003704 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 634453003705 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 634453003706 HlyD family secretion protein; Region: HlyD_3; pfam13437 634453003707 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 634453003708 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 634453003709 Walker A/P-loop; other site 634453003710 ATP binding site [chemical binding]; other site 634453003711 Q-loop/lid; other site 634453003712 ABC transporter signature motif; other site 634453003713 Walker B; other site 634453003714 D-loop; other site 634453003715 H-loop/switch region; other site 634453003716 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453003717 Walker A/P-loop; other site 634453003718 ATP binding site [chemical binding]; other site 634453003719 Q-loop/lid; other site 634453003720 ABC transporter signature motif; other site 634453003721 Walker B; other site 634453003722 D-loop; other site 634453003723 H-loop/switch region; other site 634453003724 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 634453003725 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 634453003726 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 634453003727 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 634453003728 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 634453003729 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634453003730 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453003731 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 634453003732 putative dimerization interface [polypeptide binding]; other site 634453003733 Predicted membrane protein [Function unknown]; Region: COG2855 634453003734 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 634453003735 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 634453003736 Active site cavity [active] 634453003737 catalytic acid [active] 634453003738 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634453003739 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634453003740 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634453003741 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634453003742 WHG domain; Region: WHG; pfam13305 634453003743 Secretory lipase; Region: LIP; pfam03583 634453003744 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 634453003745 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634453003746 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 634453003747 NAD(P) binding site [chemical binding]; other site 634453003748 catalytic residues [active] 634453003749 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 634453003750 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 634453003751 FMN binding site [chemical binding]; other site 634453003752 active site 634453003753 substrate binding site [chemical binding]; other site 634453003754 catalytic residue [active] 634453003755 Predicted transcriptional regulators [Transcription]; Region: COG1733 634453003756 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 634453003757 hydroperoxidase II; Provisional; Region: katE; PRK11249 634453003758 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 634453003759 heme binding pocket [chemical binding]; other site 634453003760 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 634453003761 domain interactions; other site 634453003762 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 634453003763 hypothetical protein; Provisional; Region: PRK09256 634453003764 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 634453003765 Putative glucoamylase; Region: Glycoamylase; pfam10091 634453003766 Putative glucoamylase; Region: Glycoamylase; pfam10091 634453003767 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 634453003768 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 634453003769 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 634453003770 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 634453003771 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 634453003772 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 634453003773 active site 634453003774 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 634453003775 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634453003776 Coenzyme A binding pocket [chemical binding]; other site 634453003777 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 634453003778 dimer interface [polypeptide binding]; other site 634453003779 substrate binding site [chemical binding]; other site 634453003780 ATP binding site [chemical binding]; other site 634453003781 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 634453003782 ABC transporter signature motif; other site 634453003783 Walker B; other site 634453003784 D-loop; other site 634453003785 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 634453003786 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 634453003787 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 634453003788 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 634453003789 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 634453003790 Protein of unknown function DUF72; Region: DUF72; pfam01904 634453003791 Uncharacterized conserved protein [Function unknown]; Region: COG2135 634453003792 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 634453003793 putative chaperone; Provisional; Region: PRK11678 634453003794 nucleotide binding site [chemical binding]; other site 634453003795 putative NEF/HSP70 interaction site [polypeptide binding]; other site 634453003796 SBD interface [polypeptide binding]; other site 634453003797 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 634453003798 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 634453003799 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 634453003800 HlyD family secretion protein; Region: HlyD_3; pfam13437 634453003801 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 634453003802 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634453003803 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634453003804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 634453003805 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 634453003806 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 634453003807 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 634453003808 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 634453003809 putative substrate translocation pore; other site 634453003810 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 634453003811 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 634453003812 active site 634453003813 hypothetical protein; Provisional; Region: PRK09945 634453003814 Hint domain; Region: Hint_2; pfam13403 634453003815 SnoaL-like domain; Region: SnoaL_2; pfam12680 634453003816 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 634453003817 Helix-turn-helix domain; Region: HTH_18; pfam12833 634453003818 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634453003819 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 634453003820 putative deacylase active site [active] 634453003821 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 634453003822 putative substrate translocation pore; other site 634453003823 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 634453003824 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 634453003825 metal binding site 2 [ion binding]; metal-binding site 634453003826 putative DNA binding helix; other site 634453003827 metal binding site 1 [ion binding]; metal-binding site 634453003828 dimer interface [polypeptide binding]; other site 634453003829 structural Zn2+ binding site [ion binding]; other site 634453003830 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 634453003831 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634453003832 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634453003833 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 634453003834 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 634453003835 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 634453003836 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634453003837 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453003838 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453003839 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 634453003840 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 634453003841 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 634453003842 ligand-binding site [chemical binding]; other site 634453003843 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453003844 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453003845 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 634453003846 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 634453003847 FecR protein; Region: FecR; pfam04773 634453003848 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634453003849 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 634453003850 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 634453003851 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 634453003852 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 634453003853 N-terminal plug; other site 634453003854 ligand-binding site [chemical binding]; other site 634453003855 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 634453003856 FecR protein; Region: FecR; pfam04773 634453003857 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453003858 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453003859 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 634453003860 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 634453003861 DNA binding residues [nucleotide binding] 634453003862 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 634453003863 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 634453003864 substrate binding pocket [chemical binding]; other site 634453003865 membrane-bound complex binding site; other site 634453003866 hinge residues; other site 634453003867 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 634453003868 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 634453003869 Walker A/P-loop; other site 634453003870 ATP binding site [chemical binding]; other site 634453003871 Q-loop/lid; other site 634453003872 ABC transporter signature motif; other site 634453003873 Walker B; other site 634453003874 D-loop; other site 634453003875 H-loop/switch region; other site 634453003876 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 634453003877 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 634453003878 dimer interface [polypeptide binding]; other site 634453003879 conserved gate region; other site 634453003880 putative PBP binding loops; other site 634453003881 ABC-ATPase subunit interface; other site 634453003882 Secretory lipase; Region: LIP; pfam03583 634453003883 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 634453003884 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 634453003885 active site 634453003886 iron coordination sites [ion binding]; other site 634453003887 substrate binding pocket [chemical binding]; other site 634453003888 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634453003889 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 634453003890 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634453003891 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453003892 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453003893 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634453003894 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 634453003895 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 634453003896 D-galactonate transporter; Region: 2A0114; TIGR00893 634453003897 putative substrate translocation pore; other site 634453003898 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 634453003899 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453003900 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 634453003901 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453003902 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 634453003903 putative substrate translocation pore; other site 634453003904 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 634453003905 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453003906 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 634453003907 putative dimerization interface [polypeptide binding]; other site 634453003908 putative substrate binding pocket [chemical binding]; other site 634453003909 dihydroxy-acid dehydratase; Provisional; Region: PRK13016 634453003910 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 634453003911 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 634453003912 Winged helix-turn helix; Region: HTH_29; pfam13551 634453003913 Integrase core domain; Region: rve; pfam00665 634453003914 Integrase core domain; Region: rve_3; pfam13683 634453003915 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 634453003916 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 634453003917 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634453003918 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453003919 LysR substrate binding domain; Region: LysR_substrate; pfam03466 634453003920 dimerization interface [polypeptide binding]; other site 634453003921 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 634453003922 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 634453003923 putative active site [active] 634453003924 metal binding site [ion binding]; metal-binding site 634453003925 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 634453003926 metabolite-proton symporter; Region: 2A0106; TIGR00883 634453003927 putative substrate translocation pore; other site 634453003928 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 634453003929 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 634453003930 tetrameric interface [polypeptide binding]; other site 634453003931 NAD binding site [chemical binding]; other site 634453003932 catalytic residues [active] 634453003933 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 634453003934 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 634453003935 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 634453003936 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 634453003937 dimer interface [polypeptide binding]; other site 634453003938 conserved gate region; other site 634453003939 putative PBP binding loops; other site 634453003940 ABC-ATPase subunit interface; other site 634453003941 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 634453003942 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 634453003943 Walker A/P-loop; other site 634453003944 ATP binding site [chemical binding]; other site 634453003945 Q-loop/lid; other site 634453003946 ABC transporter signature motif; other site 634453003947 Walker B; other site 634453003948 D-loop; other site 634453003949 H-loop/switch region; other site 634453003950 nickel responsive regulator; Provisional; Region: PRK04460 634453003951 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 634453003952 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 634453003953 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 634453003954 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 634453003955 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 634453003956 urea carboxylase; Region: urea_carbox; TIGR02712 634453003957 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 634453003958 ATP-grasp domain; Region: ATP-grasp_4; cl17255 634453003959 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 634453003960 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 634453003961 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 634453003962 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 634453003963 carboxyltransferase (CT) interaction site; other site 634453003964 biotinylation site [posttranslational modification]; other site 634453003965 allophanate hydrolase; Provisional; Region: PRK08186 634453003966 Amidase; Region: Amidase; cl11426 634453003967 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 634453003968 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 634453003969 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 634453003970 Part of AAA domain; Region: AAA_19; pfam13245 634453003971 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 634453003972 AAA domain; Region: AAA_30; pfam13604 634453003973 AAA domain; Region: AAA_12; pfam13087 634453003974 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 634453003975 putative active site [active] 634453003976 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 634453003977 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 634453003978 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 634453003979 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 634453003980 active site 634453003981 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 634453003982 ligand-binding site [chemical binding]; other site 634453003983 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453003984 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 634453003985 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 634453003986 heme ligand [chemical binding]; other site 634453003987 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634453003988 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634453003989 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 634453003990 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 634453003991 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 634453003992 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 634453003993 active site 634453003994 non-prolyl cis peptide bond; other site 634453003995 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634453003996 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 634453003997 Flavin Reductases; Region: FlaRed; cl00801 634453003998 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 634453003999 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 634453004000 putative substrate translocation pore; other site 634453004001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 634453004002 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 634453004003 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 634453004004 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 634453004005 active site 634453004006 dimer interface [polypeptide binding]; other site 634453004007 non-prolyl cis peptide bond; other site 634453004008 insertion regions; other site 634453004009 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; cl00782 634453004010 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 634453004011 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 634453004012 active site 634453004013 non-prolyl cis peptide bond; other site 634453004014 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 634453004015 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 634453004016 active site 634453004017 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 634453004018 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 634453004019 putative FMN binding site [chemical binding]; other site 634453004020 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453004021 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453004022 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453004023 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634453004024 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634453004025 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 634453004026 DEAD-like helicases superfamily; Region: DEXDc; smart00487 634453004027 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 634453004028 ATP binding site [chemical binding]; other site 634453004029 putative Mg++ binding site [ion binding]; other site 634453004030 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453004031 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 634453004032 Protein of unknown function DUF45; Region: DUF45; pfam01863 634453004033 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 634453004034 DNA-binding interface [nucleotide binding]; DNA binding site 634453004035 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634453004036 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 634453004037 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 634453004038 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634453004039 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 634453004040 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 634453004041 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453004042 HTH-like domain; Region: HTH_21; pfam13276 634453004043 Integrase core domain; Region: rve; pfam00665 634453004044 Integrase core domain; Region: rve_3; pfam13683 634453004045 Transposase; Region: HTH_Tnp_1; pfam01527 634453004046 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453004047 Walker A/P-loop; other site 634453004048 ATP binding site [chemical binding]; other site 634453004049 Q-loop/lid; other site 634453004050 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453004051 ABC transporter signature motif; other site 634453004052 Walker B; other site 634453004053 D-loop; other site 634453004054 H-loop/switch region; other site 634453004055 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453004056 AAA domain; Region: AAA_21; pfam13304 634453004057 Walker A/P-loop; other site 634453004058 ATP binding site [chemical binding]; other site 634453004059 Q-loop/lid; other site 634453004060 ABC transporter signature motif; other site 634453004061 Walker B; other site 634453004062 D-loop; other site 634453004063 H-loop/switch region; other site 634453004064 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 634453004065 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 634453004066 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 634453004067 glutaredoxin 2; Provisional; Region: PRK10387 634453004068 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 634453004069 C-terminal domain interface [polypeptide binding]; other site 634453004070 GSH binding site (G-site) [chemical binding]; other site 634453004071 catalytic residues [active] 634453004072 putative dimer interface [polypeptide binding]; other site 634453004073 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 634453004074 N-terminal domain interface [polypeptide binding]; other site 634453004075 polyol permease family; Region: 2A0118; TIGR00897 634453004076 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 634453004077 putative substrate translocation pore; other site 634453004078 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 634453004079 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 634453004080 active site 634453004081 SAM binding site [chemical binding]; other site 634453004082 homodimer interface [polypeptide binding]; other site 634453004083 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 634453004084 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 634453004085 active site 634453004086 putative homodimer interface [polypeptide binding]; other site 634453004087 SAM binding site [chemical binding]; other site 634453004088 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 634453004089 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 634453004090 S-adenosylmethionine binding site [chemical binding]; other site 634453004091 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 634453004092 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 634453004093 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 634453004094 active site 634453004095 SAM binding site [chemical binding]; other site 634453004096 homodimer interface [polypeptide binding]; other site 634453004097 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 634453004098 active site 634453004099 SAM binding site [chemical binding]; other site 634453004100 homodimer interface [polypeptide binding]; other site 634453004101 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 634453004102 Precorrin-8X methylmutase; Region: CbiC; pfam02570 634453004103 precorrin-3B synthase; Region: CobG; TIGR02435 634453004104 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 634453004105 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 634453004106 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 634453004107 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 634453004108 fumarate hydratase; Reviewed; Region: fumC; PRK00485 634453004109 Class II fumarases; Region: Fumarase_classII; cd01362 634453004110 active site 634453004111 tetramer interface [polypeptide binding]; other site 634453004112 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 634453004113 GAF domain; Region: GAF; cl17456 634453004114 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 634453004115 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 634453004116 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 634453004117 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 634453004118 Trp docking motif [polypeptide binding]; other site 634453004119 putative active site [active] 634453004120 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 634453004121 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 634453004122 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 634453004123 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 634453004124 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 634453004125 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 634453004126 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 634453004127 Domain of unknown function DUF20; Region: UPF0118; pfam01594 634453004128 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 634453004129 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 634453004130 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 634453004131 propionate/acetate kinase; Provisional; Region: PRK12379 634453004132 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 634453004133 phosphate acetyltransferase; Provisional; Region: PRK11890 634453004134 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 634453004135 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 634453004136 phosphate binding site [ion binding]; other site 634453004137 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 634453004138 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 634453004139 dimer interface [polypeptide binding]; other site 634453004140 PYR/PP interface [polypeptide binding]; other site 634453004141 TPP binding site [chemical binding]; other site 634453004142 substrate binding site [chemical binding]; other site 634453004143 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 634453004144 Domain of unknown function; Region: EKR; pfam10371 634453004145 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 634453004146 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 634453004147 TPP-binding site [chemical binding]; other site 634453004148 dimer interface [polypeptide binding]; other site 634453004149 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 634453004150 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634453004151 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634453004152 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 634453004153 Ca2+ binding site [ion binding]; other site 634453004154 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634453004155 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634453004156 Predicted membrane protein [Function unknown]; Region: COG1971 634453004157 Domain of unknown function DUF; Region: DUF204; pfam02659 634453004158 Domain of unknown function DUF; Region: DUF204; pfam02659 634453004159 glutathionine S-transferase; Provisional; Region: PRK10542 634453004160 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 634453004161 C-terminal domain interface [polypeptide binding]; other site 634453004162 GSH binding site (G-site) [chemical binding]; other site 634453004163 dimer interface [polypeptide binding]; other site 634453004164 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 634453004165 dimer interface [polypeptide binding]; other site 634453004166 N-terminal domain interface [polypeptide binding]; other site 634453004167 substrate binding pocket (H-site) [chemical binding]; other site 634453004168 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 634453004169 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 634453004170 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 634453004171 GTP binding site; other site 634453004172 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 634453004173 Walker A motif; other site 634453004174 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 634453004175 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 634453004176 dimer interface [polypeptide binding]; other site 634453004177 putative functional site; other site 634453004178 putative MPT binding site; other site 634453004179 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 634453004180 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 634453004181 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 634453004182 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 634453004183 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 634453004184 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 634453004185 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 634453004186 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 634453004187 [4Fe-4S] binding site [ion binding]; other site 634453004188 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 634453004189 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 634453004190 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 634453004191 molybdopterin cofactor binding site; other site 634453004192 exopolyphosphatase; Region: exo_poly_only; TIGR03706 634453004193 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 634453004194 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 634453004195 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 634453004196 S-adenosylmethionine binding site [chemical binding]; other site 634453004197 fructokinase; Reviewed; Region: PRK09557 634453004198 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 634453004199 nucleotide binding site [chemical binding]; other site 634453004200 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 634453004201 CPxP motif; other site 634453004202 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 634453004203 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 634453004204 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 634453004205 substrate binding pocket [chemical binding]; other site 634453004206 chain length determination region; other site 634453004207 substrate-Mg2+ binding site; other site 634453004208 catalytic residues [active] 634453004209 aspartate-rich region 1; other site 634453004210 active site lid residues [active] 634453004211 aspartate-rich region 2; other site 634453004212 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 634453004213 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 634453004214 TPP-binding site; other site 634453004215 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 634453004216 PYR/PP interface [polypeptide binding]; other site 634453004217 dimer interface [polypeptide binding]; other site 634453004218 TPP binding site [chemical binding]; other site 634453004219 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634453004220 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 634453004221 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 634453004222 RNA binding surface [nucleotide binding]; other site 634453004223 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 634453004224 S-adenosylmethionine binding site [chemical binding]; other site 634453004225 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 634453004226 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 634453004227 FeS/SAM binding site; other site 634453004228 argininosuccinate synthase; Provisional; Region: PRK13820 634453004229 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 634453004230 ANP binding site [chemical binding]; other site 634453004231 Substrate Binding Site II [chemical binding]; other site 634453004232 Substrate Binding Site I [chemical binding]; other site 634453004233 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 634453004234 Cytochrome c; Region: Cytochrom_C; pfam00034 634453004235 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 634453004236 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 634453004237 active site 634453004238 HIGH motif; other site 634453004239 dimer interface [polypeptide binding]; other site 634453004240 KMSKS motif; other site 634453004241 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 634453004242 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634453004243 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 634453004244 active site 634453004245 phosphorylation site [posttranslational modification] 634453004246 intermolecular recognition site; other site 634453004247 dimerization interface [polypeptide binding]; other site 634453004248 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 634453004249 DNA binding site [nucleotide binding] 634453004250 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 634453004251 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 634453004252 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 634453004253 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 634453004254 S-adenosylmethionine binding site [chemical binding]; other site 634453004255 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 634453004256 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 634453004257 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 634453004258 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 634453004259 active site 634453004260 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 634453004261 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 634453004262 peptide binding site [polypeptide binding]; other site 634453004263 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 634453004264 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 634453004265 dimer interface [polypeptide binding]; other site 634453004266 conserved gate region; other site 634453004267 ABC-ATPase subunit interface; other site 634453004268 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 634453004269 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 634453004270 dimer interface [polypeptide binding]; other site 634453004271 conserved gate region; other site 634453004272 putative PBP binding loops; other site 634453004273 ABC-ATPase subunit interface; other site 634453004274 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 634453004275 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 634453004276 Walker A/P-loop; other site 634453004277 ATP binding site [chemical binding]; other site 634453004278 Q-loop/lid; other site 634453004279 ABC transporter signature motif; other site 634453004280 Walker B; other site 634453004281 D-loop; other site 634453004282 H-loop/switch region; other site 634453004283 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 634453004284 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 634453004285 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 634453004286 Walker A/P-loop; other site 634453004287 ATP binding site [chemical binding]; other site 634453004288 Q-loop/lid; other site 634453004289 ABC transporter signature motif; other site 634453004290 Walker B; other site 634453004291 D-loop; other site 634453004292 H-loop/switch region; other site 634453004293 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 634453004294 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 634453004295 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 634453004296 FMN binding site [chemical binding]; other site 634453004297 substrate binding site [chemical binding]; other site 634453004298 putative catalytic residue [active] 634453004299 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 634453004300 active site 634453004301 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 634453004302 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 634453004303 CAS motifs; other site 634453004304 active site 634453004305 Purine nucleoside permease (NUP); Region: NUP; pfam06516 634453004306 Phosphoesterase family; Region: Phosphoesterase; pfam04185 634453004307 Phosphoesterase family; Region: Phosphoesterase; pfam04185 634453004308 Domain of unknown function (DUF756); Region: DUF756; pfam05506 634453004309 Domain of unknown function (DUF756); Region: DUF756; pfam05506 634453004310 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634453004311 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 634453004312 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 634453004313 Tannase and feruloyl esterase; Region: Tannase; pfam07519 634453004314 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 634453004315 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 634453004316 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634453004317 putative substrate translocation pore; other site 634453004318 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 634453004319 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 634453004320 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 634453004321 FAD binding pocket [chemical binding]; other site 634453004322 FAD binding motif [chemical binding]; other site 634453004323 phosphate binding motif [ion binding]; other site 634453004324 NAD binding pocket [chemical binding]; other site 634453004325 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 634453004326 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 634453004327 S-adenosylmethionine binding site [chemical binding]; other site 634453004328 Predicted transcriptional regulators [Transcription]; Region: COG1695 634453004329 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 634453004330 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634453004331 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 634453004332 multidrug resistance protein MdtN; Provisional; Region: PRK10476 634453004333 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634453004334 HlyD family secretion protein; Region: HlyD_3; pfam13437 634453004335 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634453004336 Outer membrane efflux protein; Region: OEP; pfam02321 634453004337 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 634453004338 B12 binding site [chemical binding]; other site 634453004339 Radical SAM superfamily; Region: Radical_SAM; pfam04055 634453004340 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 634453004341 FeS/SAM binding site; other site 634453004342 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 634453004343 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 634453004344 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 634453004345 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 634453004346 N-terminal plug; other site 634453004347 ligand-binding site [chemical binding]; other site 634453004348 Conserved TM helix; Region: TM_helix; pfam05552 634453004349 Mechanosensitive ion channel; Region: MS_channel; pfam00924 634453004350 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 634453004351 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 634453004352 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 634453004353 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 634453004354 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 634453004355 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 634453004356 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453004357 Walker A/P-loop; other site 634453004358 ATP binding site [chemical binding]; other site 634453004359 Q-loop/lid; other site 634453004360 ABC transporter signature motif; other site 634453004361 Walker B; other site 634453004362 D-loop; other site 634453004363 H-loop/switch region; other site 634453004364 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 634453004365 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634453004366 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453004367 Walker A/P-loop; other site 634453004368 ATP binding site [chemical binding]; other site 634453004369 Q-loop/lid; other site 634453004370 ABC transporter signature motif; other site 634453004371 Walker B; other site 634453004372 D-loop; other site 634453004373 H-loop/switch region; other site 634453004374 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 634453004375 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 634453004376 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 634453004377 N-terminal plug; other site 634453004378 ligand-binding site [chemical binding]; other site 634453004379 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 634453004380 Sel1-like repeats; Region: SEL1; smart00671 634453004381 Sel1-like repeats; Region: SEL1; smart00671 634453004382 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453004383 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453004384 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 634453004385 active site 634453004386 homotetramer interface [polypeptide binding]; other site 634453004387 homodimer interface [polypeptide binding]; other site 634453004388 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 634453004389 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 634453004390 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453004391 homodimer interface [polypeptide binding]; other site 634453004392 catalytic residue [active] 634453004393 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 634453004394 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 634453004395 TrkA-C domain; Region: TrkA_C; pfam02080 634453004396 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 634453004397 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 634453004398 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 634453004399 active site 634453004400 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 634453004401 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 634453004402 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 634453004403 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453004404 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 634453004405 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634453004406 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453004407 Walker A/P-loop; other site 634453004408 ATP binding site [chemical binding]; other site 634453004409 Q-loop/lid; other site 634453004410 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634453004411 ABC transporter signature motif; other site 634453004412 Walker B; other site 634453004413 ABC transporter; Region: ABC_tran_2; pfam12848 634453004414 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634453004415 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634453004416 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453004417 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 634453004418 dimerization interface [polypeptide binding]; other site 634453004419 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453004420 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 634453004421 Hint domain; Region: Hint_2; pfam13403 634453004422 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634453004423 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 634453004424 N-terminal plug; other site 634453004425 ligand-binding site [chemical binding]; other site 634453004426 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 634453004427 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 634453004428 putative NAD(P) binding site [chemical binding]; other site 634453004429 putative substrate binding site [chemical binding]; other site 634453004430 catalytic Zn binding site [ion binding]; other site 634453004431 structural Zn binding site [ion binding]; other site 634453004432 dimer interface [polypeptide binding]; other site 634453004433 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453004434 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 634453004435 SnoaL-like domain; Region: SnoaL_2; pfam12680 634453004436 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 634453004437 dimerization interface [polypeptide binding]; other site 634453004438 metal binding site [ion binding]; metal-binding site 634453004439 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 634453004440 catalytic core [active] 634453004441 MgtC family; Region: MgtC; pfam02308 634453004442 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 634453004443 putative CoA-transferase; Provisional; Region: PRK11430 634453004444 CoA-transferase family III; Region: CoA_transf_3; pfam02515 634453004445 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 634453004446 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453004447 oxalyl-CoA decarboxylase; Region: oxalate_oxc; TIGR03254 634453004448 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 634453004449 PYR/PP interface [polypeptide binding]; other site 634453004450 dimer interface [polypeptide binding]; other site 634453004451 TPP binding site [chemical binding]; other site 634453004452 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634453004453 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 634453004454 TPP-binding site; other site 634453004455 dimer interface [polypeptide binding]; other site 634453004456 formyl-coenzyme A transferase; Provisional; Region: PRK05398 634453004457 CoA-transferase family III; Region: CoA_transf_3; pfam02515 634453004458 oxidoreductase; Provisional; Region: PRK12742 634453004459 classical (c) SDRs; Region: SDR_c; cd05233 634453004460 NAD(P) binding site [chemical binding]; other site 634453004461 active site 634453004462 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634453004463 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634453004464 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 634453004465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634453004466 NAD(P) binding site [chemical binding]; other site 634453004467 active site 634453004468 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 634453004469 putative hydrophobic ligand binding site [chemical binding]; other site 634453004470 protein interface [polypeptide binding]; other site 634453004471 gate; other site 634453004472 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 634453004473 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634453004474 putative substrate translocation pore; other site 634453004475 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 634453004476 phosphoglucomutase; Validated; Region: PRK07564 634453004477 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 634453004478 active site 634453004479 substrate binding site [chemical binding]; other site 634453004480 metal binding site [ion binding]; metal-binding site 634453004481 maltose O-acetyltransferase; Provisional; Region: PRK10092 634453004482 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 634453004483 active site 634453004484 substrate binding site [chemical binding]; other site 634453004485 trimer interface [polypeptide binding]; other site 634453004486 CoA binding site [chemical binding]; other site 634453004487 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 634453004488 Hint domain; Region: Hint_2; pfam13403 634453004489 HTH-like domain; Region: HTH_21; pfam13276 634453004490 Integrase core domain; Region: rve; pfam00665 634453004491 Integrase core domain; Region: rve_3; pfam13683 634453004492 Transposase; Region: HTH_Tnp_1; pfam01527 634453004493 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 634453004494 FecR protein; Region: FecR; pfam04773 634453004495 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 634453004496 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 634453004497 DNA binding residues [nucleotide binding] 634453004498 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 634453004499 sensor protein QseC; Provisional; Region: PRK10337 634453004500 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634453004501 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 634453004502 dimer interface [polypeptide binding]; other site 634453004503 phosphorylation site [posttranslational modification] 634453004504 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634453004505 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 634453004506 active site 634453004507 phosphorylation site [posttranslational modification] 634453004508 intermolecular recognition site; other site 634453004509 dimerization interface [polypeptide binding]; other site 634453004510 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 634453004511 DNA binding site [nucleotide binding] 634453004512 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 634453004513 HlyD family secretion protein; Region: HlyD_2; pfam12700 634453004514 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634453004515 HlyD family secretion protein; Region: HlyD_3; pfam13437 634453004516 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 634453004517 Outer membrane efflux protein; Region: OEP; pfam02321 634453004518 acyl-CoA synthetase; Validated; Region: PRK09192 634453004519 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 634453004520 acyl-activating enzyme (AAE) consensus motif; other site 634453004521 active site 634453004522 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 634453004523 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 634453004524 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 634453004525 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634453004526 catalytic residue [active] 634453004527 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 634453004528 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 634453004529 active site 634453004530 metal binding site [ion binding]; metal-binding site 634453004531 Predicted permeases [General function prediction only]; Region: COG0795 634453004532 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 634453004533 Predicted permeases [General function prediction only]; Region: COG0795 634453004534 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 634453004535 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 634453004536 active site 634453004537 MobA-like NTP transferase domain; Region: NTP_transf_3; pfam12804 634453004538 phosphoglycolate phosphatase; Provisional; Region: PRK13222 634453004539 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 634453004540 motif II; other site 634453004541 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 634453004542 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 634453004543 Substrate binding site; other site 634453004544 Mg++ binding site; other site 634453004545 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 634453004546 active site 634453004547 substrate binding site [chemical binding]; other site 634453004548 CoA binding site [chemical binding]; other site 634453004549 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 634453004550 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 634453004551 glutaminase active site [active] 634453004552 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 634453004553 dimer interface [polypeptide binding]; other site 634453004554 active site 634453004555 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 634453004556 dimer interface [polypeptide binding]; other site 634453004557 active site 634453004558 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634453004559 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453004560 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453004561 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453004562 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453004563 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 634453004564 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 634453004565 Transcriptional regulator [Transcription]; Region: IclR; COG1414 634453004566 Bacterial transcriptional regulator; Region: IclR; pfam01614 634453004567 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 634453004568 catalytic residues [active] 634453004569 dimer interface [polypeptide binding]; other site 634453004570 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 634453004571 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 634453004572 Walker A/P-loop; other site 634453004573 ATP binding site [chemical binding]; other site 634453004574 Q-loop/lid; other site 634453004575 ABC transporter signature motif; other site 634453004576 Walker B; other site 634453004577 D-loop; other site 634453004578 H-loop/switch region; other site 634453004579 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 634453004580 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 634453004581 FtsX-like permease family; Region: FtsX; pfam02687 634453004582 prolyl-tRNA synthetase; Provisional; Region: PRK12325 634453004583 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 634453004584 dimer interface [polypeptide binding]; other site 634453004585 motif 1; other site 634453004586 active site 634453004587 motif 2; other site 634453004588 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 634453004589 active site 634453004590 motif 3; other site 634453004591 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 634453004592 anticodon binding site; other site 634453004593 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 634453004594 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 634453004595 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 634453004596 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 634453004597 nucleotide binding site [chemical binding]; other site 634453004598 Type III pantothenate kinase; Region: Pan_kinase; cl17198 634453004599 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 634453004600 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 634453004601 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 634453004602 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 634453004603 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 634453004604 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 634453004605 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 634453004606 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 634453004607 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 634453004608 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 634453004609 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 634453004610 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 634453004611 4Fe-4S binding domain; Region: Fer4; cl02805 634453004612 4Fe-4S binding domain; Region: Fer4; pfam00037 634453004613 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 634453004614 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 634453004615 NADH dehydrogenase subunit G; Validated; Region: PRK09130 634453004616 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 634453004617 catalytic loop [active] 634453004618 iron binding site [ion binding]; other site 634453004619 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 634453004620 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 634453004621 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 634453004622 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 634453004623 SLBB domain; Region: SLBB; pfam10531 634453004624 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 634453004625 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 634453004626 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 634453004627 putative dimer interface [polypeptide binding]; other site 634453004628 [2Fe-2S] cluster binding site [ion binding]; other site 634453004629 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 634453004630 NADH dehydrogenase subunit D; Validated; Region: PRK06075 634453004631 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 634453004632 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 634453004633 NADH dehydrogenase subunit B; Validated; Region: PRK06411 634453004634 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 634453004635 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 634453004636 IHF dimer interface [polypeptide binding]; other site 634453004637 IHF - DNA interface [nucleotide binding]; other site 634453004638 Found in ATP-dependent protease La (LON); Region: LON; smart00464 634453004639 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 634453004640 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 634453004641 Walker A motif; other site 634453004642 ATP binding site [chemical binding]; other site 634453004643 Walker B motif; other site 634453004644 arginine finger; other site 634453004645 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 634453004646 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 634453004647 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 634453004648 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 634453004649 Walker A motif; other site 634453004650 ATP binding site [chemical binding]; other site 634453004651 Walker B motif; other site 634453004652 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 634453004653 Clp protease; Region: CLP_protease; pfam00574 634453004654 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 634453004655 oligomer interface [polypeptide binding]; other site 634453004656 active site residues [active] 634453004657 trigger factor; Provisional; Region: tig; PRK01490 634453004658 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 634453004659 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 634453004660 Uncharacterized conserved protein [Function unknown]; Region: COG0062 634453004661 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 634453004662 putative substrate binding site [chemical binding]; other site 634453004663 putative ATP binding site [chemical binding]; other site 634453004664 Predicted integral membrane protein [Function unknown]; Region: COG5615 634453004665 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 634453004666 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 634453004667 ATP binding site [chemical binding]; other site 634453004668 Mg++ binding site [ion binding]; other site 634453004669 motif III; other site 634453004670 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 634453004671 nucleotide binding region [chemical binding]; other site 634453004672 ATP-binding site [chemical binding]; other site 634453004673 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 634453004674 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 634453004675 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 634453004676 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 634453004677 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 634453004678 trimerization site [polypeptide binding]; other site 634453004679 active site 634453004680 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 634453004681 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 634453004682 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634453004683 catalytic residue [active] 634453004684 FeS assembly protein SufD; Region: sufD; TIGR01981 634453004685 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 634453004686 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 634453004687 FeS assembly ATPase SufC; Region: sufC; TIGR01978 634453004688 Walker A/P-loop; other site 634453004689 ATP binding site [chemical binding]; other site 634453004690 Q-loop/lid; other site 634453004691 ABC transporter signature motif; other site 634453004692 Walker B; other site 634453004693 D-loop; other site 634453004694 H-loop/switch region; other site 634453004695 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 634453004696 putative ABC transporter; Region: ycf24; CHL00085 634453004697 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 634453004698 Transcriptional regulator; Region: Rrf2; pfam02082 634453004699 Transcriptional regulator; Region: Rrf2; cl17282 634453004700 Protein of unknown function (DUF445); Region: DUF445; pfam04286 634453004701 Peroxin-3; Region: Peroxin-3; pfam04882 634453004702 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 634453004703 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 634453004704 elongation factor G; Reviewed; Region: PRK12739 634453004705 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 634453004706 G1 box; other site 634453004707 putative GEF interaction site [polypeptide binding]; other site 634453004708 GTP/Mg2+ binding site [chemical binding]; other site 634453004709 Switch I region; other site 634453004710 G2 box; other site 634453004711 G3 box; other site 634453004712 Switch II region; other site 634453004713 G4 box; other site 634453004714 G5 box; other site 634453004715 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 634453004716 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 634453004717 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 634453004718 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 634453004719 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634453004720 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 634453004721 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 634453004722 Walker A/P-loop; other site 634453004723 ATP binding site [chemical binding]; other site 634453004724 Q-loop/lid; other site 634453004725 ABC transporter signature motif; other site 634453004726 Walker B; other site 634453004727 D-loop; other site 634453004728 H-loop/switch region; other site 634453004729 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 634453004730 nudix motif; other site 634453004731 PII uridylyl-transferase; Provisional; Region: PRK05092 634453004732 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 634453004733 metal binding triad; other site 634453004734 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 634453004735 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 634453004736 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 634453004737 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 634453004738 MutS domain I; Region: MutS_I; pfam01624 634453004739 MutS domain II; Region: MutS_II; pfam05188 634453004740 MutS domain III; Region: MutS_III; pfam05192 634453004741 MutS domain V; Region: MutS_V; pfam00488 634453004742 Walker A/P-loop; other site 634453004743 ATP binding site [chemical binding]; other site 634453004744 Q-loop/lid; other site 634453004745 ABC transporter signature motif; other site 634453004746 Walker B; other site 634453004747 D-loop; other site 634453004748 H-loop/switch region; other site 634453004749 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 634453004750 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 634453004751 binding surface 634453004752 TPR motif; other site 634453004753 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 634453004754 binding surface 634453004755 TPR motif; other site 634453004756 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 634453004757 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 634453004758 active site 634453004759 Zn binding site [ion binding]; other site 634453004760 Major royal jelly protein; Region: MRJP; pfam03022 634453004761 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 634453004762 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 634453004763 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453004764 catalytic residue [active] 634453004765 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 634453004766 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 634453004767 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 634453004768 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 634453004769 Tim44-like domain; Region: Tim44; pfam04280 634453004770 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 634453004771 UbiA prenyltransferase family; Region: UbiA; pfam01040 634453004772 cytochrome c oxidase subunit I; Provisional; Region: COX1; MTH00182 634453004773 cytochrome c oxidase subunit I; Provisional; Region: COX1; MTH00182 634453004774 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 634453004775 S-adenosylmethionine binding site [chemical binding]; other site 634453004776 glutathione synthetase; Provisional; Region: PRK05246 634453004777 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 634453004778 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 634453004779 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 634453004780 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 634453004781 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 634453004782 Ligand binding site; other site 634453004783 Putative Catalytic site; other site 634453004784 DXD motif; other site 634453004785 Predicted membrane protein [Function unknown]; Region: COG2246 634453004786 GtrA-like protein; Region: GtrA; pfam04138 634453004787 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 634453004788 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 634453004789 putative Zn2+ binding site [ion binding]; other site 634453004790 AsnC family; Region: AsnC_trans_reg; pfam01037 634453004791 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 634453004792 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634453004793 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634453004794 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634453004795 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453004796 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 634453004797 putative effector binding pocket; other site 634453004798 dimerization interface [polypeptide binding]; other site 634453004799 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 634453004800 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 634453004801 IHF - DNA interface [nucleotide binding]; other site 634453004802 IHF dimer interface [polypeptide binding]; other site 634453004803 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 634453004804 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 634453004805 Fe-S cluster binding site [ion binding]; other site 634453004806 active site 634453004807 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 634453004808 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 634453004809 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 634453004810 Domain of unknown function DUF20; Region: UPF0118; pfam01594 634453004811 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 634453004812 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 634453004813 DNA binding residues [nucleotide binding] 634453004814 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 634453004815 IHF - DNA interface [nucleotide binding]; other site 634453004816 IHF dimer interface [polypeptide binding]; other site 634453004817 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 634453004818 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 634453004819 dimer interface [polypeptide binding]; other site 634453004820 active site 634453004821 CoA binding pocket [chemical binding]; other site 634453004822 putative phosphate acyltransferase; Provisional; Region: PRK05331 634453004823 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 634453004824 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 634453004825 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 634453004826 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 634453004827 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 634453004828 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 634453004829 dimerization interface [polypeptide binding]; other site 634453004830 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 634453004831 ATP binding site [chemical binding]; other site 634453004832 Mg2+ binding site [ion binding]; other site 634453004833 G-X-G motif; other site 634453004834 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634453004835 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 634453004836 active site 634453004837 phosphorylation site [posttranslational modification] 634453004838 intermolecular recognition site; other site 634453004839 dimerization interface [polypeptide binding]; other site 634453004840 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 634453004841 DNA binding site [nucleotide binding] 634453004842 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 634453004843 MarR family; Region: MarR_2; pfam12802 634453004844 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 634453004845 COQ9; Region: COQ9; pfam08511 634453004846 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 634453004847 active site 634453004848 catalytic residues [active] 634453004849 metal binding site [ion binding]; metal-binding site 634453004850 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 634453004851 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 634453004852 tartrate dehydrogenase; Region: TTC; TIGR02089 634453004853 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 634453004854 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 634453004855 substrate binding site [chemical binding]; other site 634453004856 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 634453004857 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 634453004858 substrate binding site [chemical binding]; other site 634453004859 ligand binding site [chemical binding]; other site 634453004860 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 634453004861 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 634453004862 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 634453004863 RimM N-terminal domain; Region: RimM; pfam01782 634453004864 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 634453004865 signal recognition particle protein; Provisional; Region: PRK10867 634453004866 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 634453004867 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 634453004868 P loop; other site 634453004869 GTP binding site [chemical binding]; other site 634453004870 Signal peptide binding domain; Region: SRP_SPB; pfam02978 634453004871 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 634453004872 dimer interface [polypeptide binding]; other site 634453004873 ATP12 chaperone protein; Region: ATP12; pfam07542 634453004874 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 634453004875 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 634453004876 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 634453004877 RNA binding surface [nucleotide binding]; other site 634453004878 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 634453004879 active site 634453004880 recombination factor protein RarA; Reviewed; Region: PRK13342 634453004881 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 634453004882 Walker A motif; other site 634453004883 ATP binding site [chemical binding]; other site 634453004884 Walker B motif; other site 634453004885 arginine finger; other site 634453004886 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 634453004887 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 634453004888 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 634453004889 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 634453004890 UbiA prenyltransferase family; Region: UbiA; pfam01040 634453004891 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 634453004892 RNA methyltransferase, RsmE family; Region: TIGR00046 634453004893 glutamate--cysteine ligase; Region: PLN02611 634453004894 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 634453004895 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634453004896 putative substrate translocation pore; other site 634453004897 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 634453004898 GTP-binding protein Der; Reviewed; Region: PRK00093 634453004899 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 634453004900 G1 box; other site 634453004901 GTP/Mg2+ binding site [chemical binding]; other site 634453004902 Switch I region; other site 634453004903 G2 box; other site 634453004904 Switch II region; other site 634453004905 G3 box; other site 634453004906 G4 box; other site 634453004907 G5 box; other site 634453004908 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 634453004909 G1 box; other site 634453004910 GTP/Mg2+ binding site [chemical binding]; other site 634453004911 Switch I region; other site 634453004912 G2 box; other site 634453004913 G3 box; other site 634453004914 Switch II region; other site 634453004915 G4 box; other site 634453004916 G5 box; other site 634453004917 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 634453004918 Trp docking motif [polypeptide binding]; other site 634453004919 active site 634453004920 PQQ-like domain; Region: PQQ_2; pfam13360 634453004921 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 634453004922 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 634453004923 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 634453004924 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 634453004925 putative active site [active] 634453004926 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 634453004927 putative ADP-binding pocket [chemical binding]; other site 634453004928 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634453004929 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 634453004930 active site 634453004931 dimer interface [polypeptide binding]; other site 634453004932 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 634453004933 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 634453004934 Ligand Binding Site [chemical binding]; other site 634453004935 Molecular Tunnel; other site 634453004936 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 634453004937 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 634453004938 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 634453004939 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 634453004940 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 634453004941 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 634453004942 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 634453004943 Sulfate transporter family; Region: Sulfate_transp; pfam00916 634453004944 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 634453004945 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 634453004946 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 634453004947 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 634453004948 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 634453004949 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 634453004950 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 634453004951 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 634453004952 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 634453004953 Clp amino terminal domain; Region: Clp_N; pfam02861 634453004954 Clp amino terminal domain; Region: Clp_N; pfam02861 634453004955 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 634453004956 Walker A motif; other site 634453004957 ATP binding site [chemical binding]; other site 634453004958 Walker B motif; other site 634453004959 arginine finger; other site 634453004960 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 634453004961 Walker A motif; other site 634453004962 ATP binding site [chemical binding]; other site 634453004963 Walker B motif; other site 634453004964 arginine finger; other site 634453004965 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 634453004966 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 634453004967 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 634453004968 nudix motif; other site 634453004969 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 634453004970 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 634453004971 HflX GTPase family; Region: HflX; cd01878 634453004972 G1 box; other site 634453004973 GTP/Mg2+ binding site [chemical binding]; other site 634453004974 Switch I region; other site 634453004975 G2 box; other site 634453004976 G3 box; other site 634453004977 Switch II region; other site 634453004978 G4 box; other site 634453004979 G5 box; other site 634453004980 bacterial Hfq-like; Region: Hfq; cd01716 634453004981 hexamer interface [polypeptide binding]; other site 634453004982 Sm1 motif; other site 634453004983 RNA binding site [nucleotide binding]; other site 634453004984 Sm2 motif; other site 634453004985 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 634453004986 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 634453004987 active site 634453004988 phosphorylation site [posttranslational modification] 634453004989 intermolecular recognition site; other site 634453004990 dimerization interface [polypeptide binding]; other site 634453004991 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 634453004992 Walker A motif; other site 634453004993 ATP binding site [chemical binding]; other site 634453004994 Walker B motif; other site 634453004995 arginine finger; other site 634453004996 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 634453004997 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 634453004998 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 634453004999 dimerization interface [polypeptide binding]; other site 634453005000 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 634453005001 dimer interface [polypeptide binding]; other site 634453005002 phosphorylation site [posttranslational modification] 634453005003 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 634453005004 ATP binding site [chemical binding]; other site 634453005005 Mg2+ binding site [ion binding]; other site 634453005006 G-X-G motif; other site 634453005007 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 634453005008 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 634453005009 active site 634453005010 phosphorylation site [posttranslational modification] 634453005011 intermolecular recognition site; other site 634453005012 dimerization interface [polypeptide binding]; other site 634453005013 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 634453005014 Walker A motif; other site 634453005015 ATP binding site [chemical binding]; other site 634453005016 Walker B motif; other site 634453005017 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 634453005018 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 634453005019 PAS domain; Region: PAS; smart00091 634453005020 putative active site [active] 634453005021 heme pocket [chemical binding]; other site 634453005022 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 634453005023 dimer interface [polypeptide binding]; other site 634453005024 phosphorylation site [posttranslational modification] 634453005025 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 634453005026 ATP binding site [chemical binding]; other site 634453005027 Mg2+ binding site [ion binding]; other site 634453005028 G-X-G motif; other site 634453005029 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 634453005030 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 634453005031 FMN binding site [chemical binding]; other site 634453005032 active site 634453005033 catalytic residues [active] 634453005034 substrate binding site [chemical binding]; other site 634453005035 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 634453005036 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 634453005037 substrate binding site; other site 634453005038 dimer interface; other site 634453005039 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 634453005040 homotrimer interaction site [polypeptide binding]; other site 634453005041 zinc binding site [ion binding]; other site 634453005042 CDP-binding sites; other site 634453005043 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 634453005044 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 634453005045 Ligand binding site; other site 634453005046 Putative Catalytic site; other site 634453005047 DXD motif; other site 634453005048 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 634453005049 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 634453005050 active site 634453005051 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 634453005052 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 634453005053 UDP-galactopyranose mutase; Region: GLF; pfam03275 634453005054 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 634453005055 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 634453005056 active site 634453005057 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 634453005058 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634453005059 active site 634453005060 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634453005061 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 634453005062 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634453005063 active site 634453005064 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 634453005065 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 634453005066 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 634453005067 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 634453005068 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 634453005069 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 634453005070 Probable transposase; Region: OrfB_IS605; pfam01385 634453005071 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 634453005072 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 634453005073 Nitrogen regulatory protein P-II; Region: P-II; smart00938 634453005074 serine acetyltransferase; Provisional; Region: cysE; PRK11132 634453005075 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 634453005076 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 634453005077 trimer interface [polypeptide binding]; other site 634453005078 active site 634453005079 substrate binding site [chemical binding]; other site 634453005080 CoA binding site [chemical binding]; other site 634453005081 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 634453005082 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 634453005083 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 634453005084 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 634453005085 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 634453005086 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 634453005087 DDE superfamily endonuclease; Region: DDE_5; cl17874 634453005088 elongation factor P; Validated; Region: PRK00529 634453005089 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 634453005090 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 634453005091 RNA binding site [nucleotide binding]; other site 634453005092 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 634453005093 RNA binding site [nucleotide binding]; other site 634453005094 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 634453005095 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 634453005096 active site 634453005097 dimerization interface [polypeptide binding]; other site 634453005098 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 634453005099 ATP binding site [chemical binding]; other site 634453005100 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 634453005101 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 634453005102 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 634453005103 DNA-binding site [nucleotide binding]; DNA binding site 634453005104 RNA-binding motif; other site 634453005105 Dienelactone hydrolase family; Region: DLH; pfam01738 634453005106 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 634453005107 oligomerisation interface [polypeptide binding]; other site 634453005108 mobile loop; other site 634453005109 roof hairpin; other site 634453005110 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 634453005111 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 634453005112 ring oligomerisation interface [polypeptide binding]; other site 634453005113 ATP/Mg binding site [chemical binding]; other site 634453005114 stacking interactions; other site 634453005115 hinge regions; other site 634453005116 FkbH-like domain; Region: FkbH; TIGR01686 634453005117 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 634453005118 active site 634453005119 motif I; other site 634453005120 motif II; other site 634453005121 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634453005122 Transposase; Region: HTH_Tnp_1; pfam01527 634453005123 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 634453005124 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634453005125 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 634453005126 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634453005127 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 634453005128 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 634453005129 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 634453005130 Transposase domain (DUF772); Region: DUF772; pfam05598 634453005131 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453005132 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 634453005133 HTH-like domain; Region: HTH_21; pfam13276 634453005134 Integrase core domain; Region: rve; pfam00665 634453005135 Integrase core domain; Region: rve_3; pfam13683 634453005136 Transposase; Region: HTH_Tnp_1; pfam01527 634453005137 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453005138 Transposase domain (DUF772); Region: DUF772; pfam05598 634453005139 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 634453005140 Ligand binding site; other site 634453005141 Phosphotransferase enzyme family; Region: APH; pfam01636 634453005142 capsule biosynthesis phosphatase; Region: EcbF-BcbF; TIGR01689 634453005143 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634453005144 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453005145 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 634453005146 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453005147 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 634453005148 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453005149 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453005150 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 634453005151 GDP-Fucose binding site [chemical binding]; other site 634453005152 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 634453005153 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 634453005154 substrate binding site; other site 634453005155 tetramer interface; other site 634453005156 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 634453005157 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 634453005158 NAD binding site [chemical binding]; other site 634453005159 substrate binding site [chemical binding]; other site 634453005160 homodimer interface [polypeptide binding]; other site 634453005161 active site 634453005162 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634453005163 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 634453005164 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453005165 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453005166 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453005167 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634453005168 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453005169 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453005170 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634453005171 Transposase domain (DUF772); Region: DUF772; pfam05598 634453005172 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453005173 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 634453005174 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634453005175 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 634453005176 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 634453005177 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 634453005178 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 634453005179 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634453005180 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634453005181 Transposase; Region: HTH_Tnp_1; pfam01527 634453005182 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 634453005183 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 634453005184 active site 634453005185 catalytic triad [active] 634453005186 oxyanion hole [active] 634453005187 Glycosyltransferase family 17; Region: Glyco_transf_17; pfam04724 634453005188 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 634453005189 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 634453005190 Aspartyl protease; Region: Asp_protease_2; pfam13650 634453005191 inhibitor binding site; inhibition site 634453005192 catalytic motif [active] 634453005193 Catalytic residue [active] 634453005194 Active site flap [active] 634453005195 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 634453005196 inhibitor binding site; inhibition site 634453005197 catalytic motif [active] 634453005198 Catalytic residue [active] 634453005199 Active site flap [active] 634453005200 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 634453005201 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 634453005202 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 634453005203 active site 634453005204 DNA binding site [nucleotide binding] 634453005205 Int/Topo IB signature motif; other site 634453005206 primosome assembly protein PriA; Validated; Region: PRK05580 634453005207 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 634453005208 ATP binding site [chemical binding]; other site 634453005209 putative Mg++ binding site [ion binding]; other site 634453005210 Preprotein translocase subunit; Region: YajC; pfam02699 634453005211 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 634453005212 Protein of unknown function (DUF815); Region: DUF815; pfam05673 634453005213 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 634453005214 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 634453005215 [2Fe-2S] cluster binding site [ion binding]; other site 634453005216 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 634453005217 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634453005218 Coenzyme A binding pocket [chemical binding]; other site 634453005219 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 634453005220 active site 634453005221 8-oxo-dGMP binding site [chemical binding]; other site 634453005222 nudix motif; other site 634453005223 metal binding site [ion binding]; metal-binding site 634453005224 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 634453005225 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 634453005226 Substrate binding site; other site 634453005227 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 634453005228 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 634453005229 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 634453005230 homodimer interface [polypeptide binding]; other site 634453005231 substrate-cofactor binding pocket; other site 634453005232 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453005233 catalytic residue [active] 634453005234 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 634453005235 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 634453005236 GTP cyclohydrolase I; Provisional; Region: PLN03044 634453005237 active site 634453005238 intracellular protease, PfpI family; Region: PfpI; TIGR01382 634453005239 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 634453005240 conserved cys residue [active] 634453005241 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 634453005242 MPT binding site; other site 634453005243 trimer interface [polypeptide binding]; other site 634453005244 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634453005245 Uncharacterized conserved protein [Function unknown]; Region: COG4717 634453005246 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 634453005247 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 634453005248 active site 634453005249 metal binding site [ion binding]; metal-binding site 634453005250 DNA binding site [nucleotide binding] 634453005251 Fusaric acid resistance protein family; Region: FUSC; pfam04632 634453005252 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 634453005253 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 634453005254 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 634453005255 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634453005256 HlyD family secretion protein; Region: HlyD_3; pfam13437 634453005257 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 634453005258 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 634453005259 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 634453005260 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 634453005261 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 634453005262 homopentamer interface [polypeptide binding]; other site 634453005263 active site 634453005264 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 634453005265 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 634453005266 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 634453005267 dimerization interface [polypeptide binding]; other site 634453005268 active site 634453005269 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 634453005270 Lumazine binding domain; Region: Lum_binding; pfam00677 634453005271 Lumazine binding domain; Region: Lum_binding; pfam00677 634453005272 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 634453005273 catalytic motif [active] 634453005274 Zn binding site [ion binding]; other site 634453005275 RibD C-terminal domain; Region: RibD_C; cl17279 634453005276 cytochrome b; Provisional; Region: CYTB; MTH00145 634453005277 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 634453005278 Qi binding site; other site 634453005279 intrachain domain interface; other site 634453005280 interchain domain interface [polypeptide binding]; other site 634453005281 heme bH binding site [chemical binding]; other site 634453005282 heme bL binding site [chemical binding]; other site 634453005283 Qo binding site; other site 634453005284 interchain domain interface [polypeptide binding]; other site 634453005285 intrachain domain interface; other site 634453005286 Qi binding site; other site 634453005287 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 634453005288 Qo binding site; other site 634453005289 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 634453005290 Cytochrome c; Region: Cytochrom_C; cl11414 634453005291 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 634453005292 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 634453005293 [2Fe-2S] cluster binding site [ion binding]; other site 634453005294 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 634453005295 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 634453005296 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 634453005297 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 634453005298 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 634453005299 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 634453005300 Hint domain; Region: Hint_2; pfam13403 634453005301 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 634453005302 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 634453005303 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453005304 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 634453005305 Predicted helicase [General function prediction only]; Region: COG4889 634453005306 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 634453005307 ATP binding site [chemical binding]; other site 634453005308 putative Mg++ binding site [ion binding]; other site 634453005309 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 634453005310 ATP-binding site [chemical binding]; other site 634453005311 Protein of unknown function DUF262; Region: DUF262; pfam03235 634453005312 Uncharacterized conserved protein [Function unknown]; Region: COG1479 634453005313 Protein of unknown function DUF262; Region: DUF262; pfam03235 634453005314 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 634453005315 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 634453005316 HTH-like domain; Region: HTH_21; pfam13276 634453005317 Integrase core domain; Region: rve; pfam00665 634453005318 Integrase core domain; Region: rve_3; pfam13683 634453005319 Transposase; Region: HTH_Tnp_1; pfam01527 634453005320 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 634453005321 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 634453005322 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 634453005323 GTPase CgtA; Reviewed; Region: obgE; PRK12299 634453005324 GTP1/OBG; Region: GTP1_OBG; pfam01018 634453005325 Obg GTPase; Region: Obg; cd01898 634453005326 G1 box; other site 634453005327 GTP/Mg2+ binding site [chemical binding]; other site 634453005328 Switch I region; other site 634453005329 G2 box; other site 634453005330 G3 box; other site 634453005331 Switch II region; other site 634453005332 G4 box; other site 634453005333 G5 box; other site 634453005334 gamma-glutamyl kinase; Provisional; Region: PRK05429 634453005335 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 634453005336 nucleotide binding site [chemical binding]; other site 634453005337 homotetrameric interface [polypeptide binding]; other site 634453005338 putative phosphate binding site [ion binding]; other site 634453005339 putative allosteric binding site; other site 634453005340 PUA domain; Region: PUA; pfam01472 634453005341 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 634453005342 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 634453005343 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 634453005344 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 634453005345 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 634453005346 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 634453005347 substrate binding pocket [chemical binding]; other site 634453005348 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 634453005349 cell division protein MraZ; Reviewed; Region: PRK00326 634453005350 MraZ protein; Region: MraZ; pfam02381 634453005351 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 634453005352 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 634453005353 S-adenosylmethionine binding site [chemical binding]; other site 634453005354 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 634453005355 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 634453005356 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 634453005357 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 634453005358 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 634453005359 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 634453005360 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634453005361 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 634453005362 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 634453005363 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 634453005364 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634453005365 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 634453005366 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 634453005367 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 634453005368 Mg++ binding site [ion binding]; other site 634453005369 putative catalytic motif [active] 634453005370 putative substrate binding site [chemical binding]; other site 634453005371 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 634453005372 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634453005373 cell division protein FtsW; Region: ftsW; TIGR02614 634453005374 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 634453005375 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 634453005376 active site 634453005377 homodimer interface [polypeptide binding]; other site 634453005378 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 634453005379 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 634453005380 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634453005381 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 634453005382 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 634453005383 FAD binding domain; Region: FAD_binding_4; pfam01565 634453005384 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 634453005385 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 634453005386 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 634453005387 ATP-grasp domain; Region: ATP-grasp_4; cl17255 634453005388 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 634453005389 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 634453005390 Cell division protein FtsQ; Region: FtsQ; pfam03799 634453005391 Cell division protein FtsA; Region: FtsA; smart00842 634453005392 cell division protein FtsA; Region: ftsA; TIGR01174 634453005393 Cell division protein FtsA; Region: FtsA; pfam14450 634453005394 cell division protein FtsZ; Validated; Region: PRK09330 634453005395 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 634453005396 nucleotide binding site [chemical binding]; other site 634453005397 SulA interaction site; other site 634453005398 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 634453005399 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 634453005400 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 634453005401 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 634453005402 binding surface 634453005403 TPR motif; other site 634453005404 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 634453005405 Walker A/P-loop; other site 634453005406 ATP binding site [chemical binding]; other site 634453005407 Q-loop/lid; other site 634453005408 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 634453005409 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 634453005410 ABC transporter signature motif; other site 634453005411 Walker B; other site 634453005412 D-loop; other site 634453005413 H-loop/switch region; other site 634453005414 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 634453005415 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 634453005416 nucleotide binding pocket [chemical binding]; other site 634453005417 K-X-D-G motif; other site 634453005418 catalytic site [active] 634453005419 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 634453005420 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 634453005421 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 634453005422 Dimer interface [polypeptide binding]; other site 634453005423 BRCT sequence motif; other site 634453005424 pyruvate phosphate dikinase; Provisional; Region: PRK09279 634453005425 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 634453005426 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 634453005427 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 634453005428 PEP synthetase regulatory protein; Provisional; Region: PRK05339 634453005429 Uncharacterized conserved protein [Function unknown]; Region: COG1739 634453005430 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 634453005431 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 634453005432 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 634453005433 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 634453005434 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 634453005435 active site 634453005436 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 634453005437 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634453005438 active site 634453005439 HIGH motif; other site 634453005440 nucleotide binding site [chemical binding]; other site 634453005441 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 634453005442 active site 634453005443 KMSKS motif; other site 634453005444 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 634453005445 Isochorismatase family; Region: Isochorismatase; pfam00857 634453005446 catalytic triad [active] 634453005447 metal binding site [ion binding]; metal-binding site 634453005448 conserved cis-peptide bond; other site 634453005449 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 634453005450 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 634453005451 metal-binding site [ion binding] 634453005452 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 634453005453 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 634453005454 metal-binding site [ion binding] 634453005455 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 634453005456 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 634453005457 motif II; other site 634453005458 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 634453005459 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 634453005460 Multicopper oxidase; Region: Cu-oxidase; pfam00394 634453005461 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 634453005462 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 634453005463 ketol-acid reductoisomerase; Provisional; Region: PRK05479 634453005464 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 634453005465 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 634453005466 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 634453005467 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 634453005468 putative valine binding site [chemical binding]; other site 634453005469 dimer interface [polypeptide binding]; other site 634453005470 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 634453005471 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 634453005472 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 634453005473 PYR/PP interface [polypeptide binding]; other site 634453005474 dimer interface [polypeptide binding]; other site 634453005475 TPP binding site [chemical binding]; other site 634453005476 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634453005477 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 634453005478 TPP-binding site [chemical binding]; other site 634453005479 dimer interface [polypeptide binding]; other site 634453005480 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 634453005481 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 634453005482 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 634453005483 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 634453005484 motif II; other site 634453005485 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 634453005486 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 634453005487 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 634453005488 ATP binding site [chemical binding]; other site 634453005489 putative Mg++ binding site [ion binding]; other site 634453005490 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 634453005491 nucleotide binding region [chemical binding]; other site 634453005492 ATP-binding site [chemical binding]; other site 634453005493 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634453005494 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 634453005495 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634453005496 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 634453005497 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 634453005498 active site 634453005499 Zn binding site [ion binding]; other site 634453005500 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 634453005501 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 634453005502 dimer interface [polypeptide binding]; other site 634453005503 active site 634453005504 glycine-pyridoxal phosphate binding site [chemical binding]; other site 634453005505 folate binding site [chemical binding]; other site 634453005506 amino acid transporter; Region: 2A0306; TIGR00909 634453005507 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 634453005508 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 634453005509 dimer interface [polypeptide binding]; other site 634453005510 allosteric magnesium binding site [ion binding]; other site 634453005511 active site 634453005512 aspartate-rich active site metal binding site; other site 634453005513 Schiff base residues; other site 634453005514 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 634453005515 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 634453005516 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 634453005517 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 634453005518 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 634453005519 CAP-like domain; other site 634453005520 active site 634453005521 primary dimer interface [polypeptide binding]; other site 634453005522 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 634453005523 Recombination protein O N terminal; Region: RecO_N; pfam11967 634453005524 Recombination protein O C terminal; Region: RecO_C; pfam02565 634453005525 elongation factor Ts; Provisional; Region: tsf; PRK09377 634453005526 UBA/TS-N domain; Region: UBA; pfam00627 634453005527 Elongation factor TS; Region: EF_TS; pfam00889 634453005528 Elongation factor TS; Region: EF_TS; pfam00889 634453005529 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 634453005530 rRNA interaction site [nucleotide binding]; other site 634453005531 S8 interaction site; other site 634453005532 putative laminin-1 binding site; other site 634453005533 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 634453005534 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 634453005535 [2Fe-2S] cluster binding site [ion binding]; other site 634453005536 Selenoprotein P, N terminal region; Region: SelP_N; pfam04592 634453005537 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 634453005538 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 634453005539 homodimer interface [polypeptide binding]; other site 634453005540 substrate-cofactor binding pocket; other site 634453005541 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453005542 catalytic residue [active] 634453005543 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 634453005544 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 634453005545 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 634453005546 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 634453005547 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 634453005548 putative active site [active] 634453005549 putative PHP Thumb interface [polypeptide binding]; other site 634453005550 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 634453005551 generic binding surface II; other site 634453005552 generic binding surface I; other site 634453005553 Pantoate-beta-alanine ligase; Region: PanC; cd00560 634453005554 pantoate--beta-alanine ligase; Region: panC; TIGR00018 634453005555 active site 634453005556 ATP-binding site [chemical binding]; other site 634453005557 pantoate-binding site; other site 634453005558 HXXH motif; other site 634453005559 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 634453005560 homotrimer interaction site [polypeptide binding]; other site 634453005561 putative active site [active] 634453005562 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 634453005563 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 634453005564 aspartate aminotransferase; Provisional; Region: PRK05764 634453005565 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 634453005566 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453005567 homodimer interface [polypeptide binding]; other site 634453005568 catalytic residue [active] 634453005569 aspartate aminotransferase; Provisional; Region: PRK05764 634453005570 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 634453005571 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453005572 homodimer interface [polypeptide binding]; other site 634453005573 catalytic residue [active] 634453005574 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 634453005575 active site 634453005576 HIGH motif; other site 634453005577 nucleotide binding site [chemical binding]; other site 634453005578 active site 634453005579 KMSKS motif; other site 634453005580 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 634453005581 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 634453005582 active site 634453005583 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 634453005584 metal-binding site [ion binding] 634453005585 hopanoid C-3 methylase HpnR; Region: HpnR_B12_rSAM; TIGR04367 634453005586 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 634453005587 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 634453005588 FeS/SAM binding site; other site 634453005589 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 634453005590 active site 634453005591 multimer interface [polypeptide binding]; other site 634453005592 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 634453005593 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453005594 Walker A/P-loop; other site 634453005595 ATP binding site [chemical binding]; other site 634453005596 Q-loop/lid; other site 634453005597 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634453005598 ABC transporter; Region: ABC_tran_2; pfam12848 634453005599 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634453005600 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 634453005601 Domain of unknown function DUF20; Region: UPF0118; pfam01594 634453005602 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634453005603 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 634453005604 active site 634453005605 phosphorylation site [posttranslational modification] 634453005606 intermolecular recognition site; other site 634453005607 dimerization interface [polypeptide binding]; other site 634453005608 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 634453005609 DNA binding site [nucleotide binding] 634453005610 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634453005611 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 634453005612 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 634453005613 dimer interface [polypeptide binding]; other site 634453005614 phosphorylation site [posttranslational modification] 634453005615 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 634453005616 ATP binding site [chemical binding]; other site 634453005617 Mg2+ binding site [ion binding]; other site 634453005618 G-X-G motif; other site 634453005619 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 634453005620 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 634453005621 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 634453005622 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 634453005623 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 634453005624 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 634453005625 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 634453005626 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 634453005627 active site 634453005628 dimer interface [polypeptide binding]; other site 634453005629 motif 1; other site 634453005630 motif 2; other site 634453005631 motif 3; other site 634453005632 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 634453005633 anticodon binding site; other site 634453005634 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 634453005635 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 634453005636 putative active site [active] 634453005637 TPR repeat; Region: TPR_11; pfam13414 634453005638 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 634453005639 binding surface 634453005640 TPR motif; other site 634453005641 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634453005642 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 634453005643 putative ADP-binding pocket [chemical binding]; other site 634453005644 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 634453005645 ATP-NAD kinase; Region: NAD_kinase; pfam01513 634453005646 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 634453005647 RNA/DNA hybrid binding site [nucleotide binding]; other site 634453005648 active site 634453005649 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 634453005650 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 634453005651 putative active site [active] 634453005652 putative substrate binding site [chemical binding]; other site 634453005653 ATP binding site [chemical binding]; other site 634453005654 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 634453005655 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 634453005656 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 634453005657 ABC1 family; Region: ABC1; cl17513 634453005658 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 634453005659 active site 634453005660 substrate binding site [chemical binding]; other site 634453005661 ATP binding site [chemical binding]; other site 634453005662 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 634453005663 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 634453005664 active site 634453005665 Zn binding site [ion binding]; other site 634453005666 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 634453005667 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 634453005668 active site 634453005669 dimer interface [polypeptide binding]; other site 634453005670 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 634453005671 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 634453005672 active site 634453005673 FMN binding site [chemical binding]; other site 634453005674 substrate binding site [chemical binding]; other site 634453005675 3Fe-4S cluster binding site [ion binding]; other site 634453005676 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 634453005677 domain interface; other site 634453005678 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 634453005679 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634453005680 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634453005681 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 634453005682 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 634453005683 putative NAD(P) binding site [chemical binding]; other site 634453005684 active site 634453005685 EamA-like transporter family; Region: EamA; pfam00892 634453005686 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 634453005687 EamA-like transporter family; Region: EamA; pfam00892 634453005688 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 634453005689 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 634453005690 active site 634453005691 metal binding site [ion binding]; metal-binding site 634453005692 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 634453005693 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 634453005694 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 634453005695 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 634453005696 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 634453005697 histidinol dehydrogenase; Region: hisD; TIGR00069 634453005698 NAD binding site [chemical binding]; other site 634453005699 dimerization interface [polypeptide binding]; other site 634453005700 product binding site; other site 634453005701 substrate binding site [chemical binding]; other site 634453005702 zinc binding site [ion binding]; other site 634453005703 catalytic residues [active] 634453005704 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 634453005705 rRNA binding site [nucleotide binding]; other site 634453005706 predicted 30S ribosome binding site; other site 634453005707 Maf-like protein; Region: Maf; pfam02545 634453005708 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 634453005709 active site 634453005710 dimer interface [polypeptide binding]; other site 634453005711 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 634453005712 RNA binding site [nucleotide binding]; other site 634453005713 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 634453005714 Domain of unknown function (DUF329); Region: DUF329; pfam03884 634453005715 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 634453005716 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 634453005717 catalytic residue [active] 634453005718 protease 2; Provisional; Region: PRK10115 634453005719 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 634453005720 Phage capsid family; Region: Phage_capsid; pfam05065 634453005721 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 634453005722 Phage-related protein [Function unknown]; Region: COG4695 634453005723 Phage portal protein; Region: Phage_portal; pfam04860 634453005724 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 634453005725 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 634453005726 active site 634453005727 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 634453005728 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 634453005729 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 634453005730 active site 634453005731 DNA binding site [nucleotide binding] 634453005732 Int/Topo IB signature motif; other site 634453005733 Protein of unknown function (DUF2283); Region: DUF2283; pfam10049 634453005734 Prophage antirepressor [Transcription]; Region: COG3617 634453005735 BRO family, N-terminal domain; Region: Bro-N; smart01040 634453005736 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 634453005737 Predicted transcriptional regulator [Transcription]; Region: COG2932 634453005738 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 634453005739 Catalytic site [active] 634453005740 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 634453005741 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 634453005742 active site 634453005743 catalytic site [active] 634453005744 substrate binding site [chemical binding]; other site 634453005745 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 634453005746 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 634453005747 non-specific DNA binding site [nucleotide binding]; other site 634453005748 salt bridge; other site 634453005749 sequence-specific DNA binding site [nucleotide binding]; other site 634453005750 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 634453005751 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 634453005752 active site 634453005753 DNA binding site [nucleotide binding] 634453005754 Int/Topo IB signature motif; other site 634453005755 Cytochrome c; Region: Cytochrom_C; pfam00034 634453005756 3beta17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 3beta-17beta-HSD_like_SDR_c; cd05341 634453005757 homotetramer interface [polypeptide binding]; other site 634453005758 short chain dehydrogenase; Validated; Region: PRK07069 634453005759 NAD binding site [chemical binding]; other site 634453005760 homodimer interface [polypeptide binding]; other site 634453005761 active site 634453005762 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 634453005763 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634453005764 NAD binding site [chemical binding]; other site 634453005765 catalytic residues [active] 634453005766 D-lactate dehydrogenase; Provisional; Region: PRK11183 634453005767 FAD binding domain; Region: FAD_binding_4; pfam01565 634453005768 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 634453005769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 634453005770 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 634453005771 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 634453005772 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 634453005773 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 634453005774 Uncharacterized conserved protein [Function unknown]; Region: COG2308 634453005775 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 634453005776 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 634453005777 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 634453005778 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 634453005779 dimerization interface [polypeptide binding]; other site 634453005780 active site 634453005781 quinolinate synthetase; Provisional; Region: PRK09375 634453005782 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 634453005783 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634453005784 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634453005785 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 634453005786 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634453005787 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634453005788 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 634453005789 NAD(P) binding site [chemical binding]; other site 634453005790 catalytic residues [active] 634453005791 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 634453005792 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634453005793 putative substrate translocation pore; other site 634453005794 Domain of unknown function (DUF336); Region: DUF336; pfam03928 634453005795 Predicted flavoprotein [General function prediction only]; Region: COG0431 634453005796 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 634453005797 Pirin-related protein [General function prediction only]; Region: COG1741 634453005798 Pirin; Region: Pirin; pfam02678 634453005799 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 634453005800 LysR family transcriptional regulator; Provisional; Region: PRK14997 634453005801 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453005802 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 634453005803 putative effector binding pocket; other site 634453005804 putative dimerization interface [polypeptide binding]; other site 634453005805 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634453005806 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 634453005807 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634453005808 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 634453005809 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 634453005810 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634453005811 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 634453005812 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 634453005813 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 634453005814 D-galactonate transporter; Region: 2A0114; TIGR00893 634453005815 putative substrate translocation pore; other site 634453005816 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 634453005817 EamA-like transporter family; Region: EamA; cl17759 634453005818 EamA-like transporter family; Region: EamA; pfam00892 634453005819 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 634453005820 putative active site [active] 634453005821 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 634453005822 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 634453005823 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 634453005824 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 634453005825 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634453005826 NAD(P) binding site [chemical binding]; other site 634453005827 active site 634453005828 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 634453005829 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 634453005830 carboxyltransferase (CT) interaction site; other site 634453005831 biotinylation site [posttranslational modification]; other site 634453005832 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 634453005833 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 634453005834 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 634453005835 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 634453005836 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 634453005837 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 634453005838 carboxyltransferase (CT) interaction site; other site 634453005839 biotinylation site [posttranslational modification]; other site 634453005840 aspartate aminotransferase; Provisional; Region: PRK05764 634453005841 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 634453005842 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453005843 homodimer interface [polypeptide binding]; other site 634453005844 catalytic residue [active] 634453005845 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 634453005846 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453005847 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 634453005848 putative dimerization interface [polypeptide binding]; other site 634453005849 amidase; Provisional; Region: PRK07056 634453005850 Amidase; Region: Amidase; cl11426 634453005851 short chain dehydrogenase; Provisional; Region: PRK09291 634453005852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634453005853 NAD(P) binding site [chemical binding]; other site 634453005854 active site 634453005855 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 634453005856 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 634453005857 active site 634453005858 catalytic site [active] 634453005859 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 634453005860 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 634453005861 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 634453005862 catalytic site [active] 634453005863 active site 634453005864 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 634453005865 glycogen branching enzyme; Provisional; Region: PRK05402 634453005866 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 634453005867 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 634453005868 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 634453005869 active site 634453005870 catalytic site [active] 634453005871 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 634453005872 glycogen synthase; Provisional; Region: glgA; PRK00654 634453005873 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 634453005874 ADP-binding pocket [chemical binding]; other site 634453005875 homodimer interface [polypeptide binding]; other site 634453005876 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 634453005877 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 634453005878 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 634453005879 active site 634453005880 catalytic site [active] 634453005881 short chain dehydrogenase; Provisional; Region: PRK06701 634453005882 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634453005883 NAD(P) binding site [chemical binding]; other site 634453005884 active site 634453005885 thiamine pyrophosphate protein; Provisional; Region: PRK08273 634453005886 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 634453005887 PYR/PP interface [polypeptide binding]; other site 634453005888 dimer interface [polypeptide binding]; other site 634453005889 tetramer interface [polypeptide binding]; other site 634453005890 TPP binding site [chemical binding]; other site 634453005891 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634453005892 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 634453005893 TPP-binding site [chemical binding]; other site 634453005894 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 634453005895 Transposase; Region: HTH_Tnp_1; pfam01527 634453005896 HTH-like domain; Region: HTH_21; pfam13276 634453005897 Integrase core domain; Region: rve; pfam00665 634453005898 Integrase core domain; Region: rve_3; pfam13683 634453005899 FAD binding domain; Region: FAD_binding_3; pfam01494 634453005900 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 634453005901 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 634453005902 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 634453005903 Cu(I) binding site [ion binding]; other site 634453005904 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634453005905 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 634453005906 N-terminal plug; other site 634453005907 ligand-binding site [chemical binding]; other site 634453005908 Hint domain; Region: Hint_2; pfam13403 634453005909 HTH-like domain; Region: HTH_21; pfam13276 634453005910 Integrase core domain; Region: rve; pfam00665 634453005911 Integrase core domain; Region: rve_3; pfam13683 634453005912 Transposase; Region: HTH_Tnp_1; pfam01527 634453005913 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 634453005914 nudix motif; other site 634453005915 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453005916 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 634453005917 dimerization interface [polypeptide binding]; other site 634453005918 Fusaric acid resistance protein family; Region: FUSC; pfam04632 634453005919 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634453005920 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 634453005921 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 634453005922 Zinc-finger domain; Region: zf-CHCC; pfam10276 634453005923 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 634453005924 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 634453005925 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 634453005926 DsbD alpha interface [polypeptide binding]; other site 634453005927 catalytic residues [active] 634453005928 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 634453005929 seryl-tRNA synthetase; Provisional; Region: PRK05431 634453005930 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 634453005931 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 634453005932 dimer interface [polypeptide binding]; other site 634453005933 active site 634453005934 motif 1; other site 634453005935 motif 2; other site 634453005936 motif 3; other site 634453005937 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 634453005938 sec-independent translocase; Provisional; Region: tatB; PRK00182 634453005939 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 634453005940 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 634453005941 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 634453005942 Sporulation related domain; Region: SPOR; pfam05036 634453005943 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 634453005944 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 634453005945 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634453005946 active site 634453005947 HIGH motif; other site 634453005948 nucleotide binding site [chemical binding]; other site 634453005949 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 634453005950 KMSK motif region; other site 634453005951 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 634453005952 tRNA binding surface [nucleotide binding]; other site 634453005953 anticodon binding site; other site 634453005954 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 634453005955 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 634453005956 Zn2+ binding site [ion binding]; other site 634453005957 Mg2+ binding site [ion binding]; other site 634453005958 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 634453005959 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 634453005960 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 634453005961 putative catalytic site [active] 634453005962 putative phosphate binding site [ion binding]; other site 634453005963 active site 634453005964 metal binding site A [ion binding]; metal-binding site 634453005965 DNA binding site [nucleotide binding] 634453005966 putative AP binding site [nucleotide binding]; other site 634453005967 putative metal binding site B [ion binding]; other site 634453005968 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 634453005969 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 634453005970 active site 634453005971 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 634453005972 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 634453005973 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 634453005974 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 634453005975 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 634453005976 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 634453005977 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 634453005978 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 634453005979 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 634453005980 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 634453005981 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 634453005982 FeS/SAM binding site; other site 634453005983 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 634453005984 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 634453005985 dinuclear metal binding motif [ion binding]; other site 634453005986 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 634453005987 Clp protease; Region: CLP_protease; pfam00574 634453005988 oligomer interface [polypeptide binding]; other site 634453005989 active site residues [active] 634453005990 aminotransferase; Validated; Region: PRK09148 634453005991 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 634453005992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453005993 homodimer interface [polypeptide binding]; other site 634453005994 catalytic residue [active] 634453005995 homoserine dehydrogenase; Provisional; Region: PRK06349 634453005996 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 634453005997 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 634453005998 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 634453005999 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 634453006000 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 634453006001 putative active site [active] 634453006002 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 634453006003 DHH family; Region: DHH; pfam01368 634453006004 DHHA1 domain; Region: DHHA1; pfam02272 634453006005 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 634453006006 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634453006007 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 634453006008 DNA binding residues [nucleotide binding] 634453006009 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 634453006010 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 634453006011 RNA binding surface [nucleotide binding]; other site 634453006012 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 634453006013 active site 634453006014 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 634453006015 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 634453006016 ABC-ATPase subunit interface; other site 634453006017 dimer interface [polypeptide binding]; other site 634453006018 putative PBP binding regions; other site 634453006019 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 634453006020 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 634453006021 Walker A/P-loop; other site 634453006022 ATP binding site [chemical binding]; other site 634453006023 Q-loop/lid; other site 634453006024 ABC transporter signature motif; other site 634453006025 Walker B; other site 634453006026 D-loop; other site 634453006027 H-loop/switch region; other site 634453006028 Uncharacterized conserved protein [Function unknown]; Region: COG0397 634453006029 hypothetical protein; Validated; Region: PRK00029 634453006030 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 634453006031 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 634453006032 homodimer interface [polypeptide binding]; other site 634453006033 substrate-cofactor binding pocket; other site 634453006034 catalytic residue [active] 634453006035 DNA polymerase I; Provisional; Region: PRK05755 634453006036 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 634453006037 active site 634453006038 metal binding site 1 [ion binding]; metal-binding site 634453006039 putative 5' ssDNA interaction site; other site 634453006040 metal binding site 3; metal-binding site 634453006041 metal binding site 2 [ion binding]; metal-binding site 634453006042 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 634453006043 putative DNA binding site [nucleotide binding]; other site 634453006044 putative metal binding site [ion binding]; other site 634453006045 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 634453006046 active site 634453006047 catalytic site [active] 634453006048 substrate binding site [chemical binding]; other site 634453006049 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 634453006050 active site 634453006051 DNA binding site [nucleotide binding] 634453006052 catalytic site [active] 634453006053 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 634453006054 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 634453006055 Cu(I) binding site [ion binding]; other site 634453006056 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 634453006057 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 634453006058 putative acyl-acceptor binding pocket; other site 634453006059 proline/glycine betaine transporter; Provisional; Region: PRK10642 634453006060 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 634453006061 putative substrate translocation pore; other site 634453006062 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453006063 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453006064 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 634453006065 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 634453006066 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 634453006067 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 634453006068 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 634453006069 L-asparagine permease; Provisional; Region: PRK15049 634453006070 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 634453006071 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 634453006072 Trp docking motif [polypeptide binding]; other site 634453006073 putative active site [active] 634453006074 Hint domain; Region: Hint_2; pfam13403 634453006075 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 634453006076 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 634453006077 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 634453006078 inhibitor-cofactor binding pocket; inhibition site 634453006079 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453006080 catalytic residue [active] 634453006081 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 634453006082 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 634453006083 DNA-binding site [nucleotide binding]; DNA binding site 634453006084 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 634453006085 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453006086 homodimer interface [polypeptide binding]; other site 634453006087 catalytic residue [active] 634453006088 allantoate amidohydrolase; Reviewed; Region: PRK09290 634453006089 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 634453006090 active site 634453006091 metal binding site [ion binding]; metal-binding site 634453006092 dimer interface [polypeptide binding]; other site 634453006093 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 634453006094 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 634453006095 homodimer interface [polypeptide binding]; other site 634453006096 active site 634453006097 FMN binding site [chemical binding]; other site 634453006098 substrate binding site [chemical binding]; other site 634453006099 4Fe-4S binding domain; Region: Fer4; pfam00037 634453006100 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 634453006101 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 634453006102 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 634453006103 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 634453006104 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634453006105 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 634453006106 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 634453006107 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 634453006108 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 634453006109 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634453006110 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634453006111 Transposase; Region: HTH_Tnp_1; pfam01527 634453006112 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634453006113 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 634453006114 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 634453006115 phenylhydantoinase; Validated; Region: PRK08323 634453006116 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 634453006117 tetramer interface [polypeptide binding]; other site 634453006118 active site 634453006119 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 634453006120 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 634453006121 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 634453006122 putative substrate binding site [chemical binding]; other site 634453006123 Na binding site [ion binding]; other site 634453006124 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634453006125 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 634453006126 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 634453006127 active site 634453006128 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 634453006129 active site 634453006130 dimer interface [polypeptide binding]; other site 634453006131 Preprotein translocase subunit SecB; Region: SecB; pfam02556 634453006132 SecA binding site; other site 634453006133 Preprotein binding site; other site 634453006134 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 634453006135 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 634453006136 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 634453006137 active site 634453006138 hydrophilic channel; other site 634453006139 catalytic residues [active] 634453006140 active site lid [active] 634453006141 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 634453006142 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 634453006143 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 634453006144 Na binding site [ion binding]; other site 634453006145 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 634453006146 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 634453006147 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 634453006148 Beta-lactamase; Region: Beta-lactamase; pfam00144 634453006149 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 634453006150 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 634453006151 non-specific DNA binding site [nucleotide binding]; other site 634453006152 salt bridge; other site 634453006153 sequence-specific DNA binding site [nucleotide binding]; other site 634453006154 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 634453006155 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 634453006156 heme-binding site [chemical binding]; other site 634453006157 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 634453006158 FAD binding pocket [chemical binding]; other site 634453006159 FAD binding motif [chemical binding]; other site 634453006160 phosphate binding motif [ion binding]; other site 634453006161 beta-alpha-beta structure motif; other site 634453006162 NAD binding pocket [chemical binding]; other site 634453006163 Heme binding pocket [chemical binding]; other site 634453006164 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 634453006165 dimer interface [polypeptide binding]; other site 634453006166 conserved gate region; other site 634453006167 putative PBP binding loops; other site 634453006168 ABC-ATPase subunit interface; other site 634453006169 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 634453006170 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 634453006171 Walker A/P-loop; other site 634453006172 ATP binding site [chemical binding]; other site 634453006173 Q-loop/lid; other site 634453006174 ABC transporter signature motif; other site 634453006175 Walker B; other site 634453006176 D-loop; other site 634453006177 H-loop/switch region; other site 634453006178 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 634453006179 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 634453006180 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 634453006181 FAD binding domain; Region: FAD_binding_4; pfam01565 634453006182 siroheme synthase; Provisional; Region: cysG; PRK10637 634453006183 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 634453006184 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 634453006185 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 634453006186 active site 634453006187 SAM binding site [chemical binding]; other site 634453006188 homodimer interface [polypeptide binding]; other site 634453006189 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 634453006190 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 634453006191 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 634453006192 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 634453006193 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 634453006194 Amidase; Region: Amidase; cl11426 634453006195 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 634453006196 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 634453006197 intersubunit interface [polypeptide binding]; other site 634453006198 active site 634453006199 Zn2+ binding site [ion binding]; other site 634453006200 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 634453006201 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 634453006202 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 634453006203 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 634453006204 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 634453006205 FMN-binding pocket [chemical binding]; other site 634453006206 flavin binding motif; other site 634453006207 phosphate binding motif [ion binding]; other site 634453006208 beta-alpha-beta structure motif; other site 634453006209 NAD binding pocket [chemical binding]; other site 634453006210 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 634453006211 catalytic loop [active] 634453006212 iron binding site [ion binding]; other site 634453006213 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 634453006214 classical (c) SDRs; Region: SDR_c; cd05233 634453006215 NAD(P) binding site [chemical binding]; other site 634453006216 active site 634453006217 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 634453006218 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 634453006219 [2Fe-2S] cluster binding site [ion binding]; other site 634453006220 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 634453006221 putative alpha subunit interface [polypeptide binding]; other site 634453006222 putative active site [active] 634453006223 putative substrate binding site [chemical binding]; other site 634453006224 Fe binding site [ion binding]; other site 634453006225 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 634453006226 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 634453006227 active site 634453006228 Carbohydrate-selective porin, OprB family; Region: OprB; cl17816 634453006229 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 634453006230 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634453006231 NAD(P) binding site [chemical binding]; other site 634453006232 catalytic residues [active] 634453006233 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 634453006234 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 634453006235 Trp docking motif [polypeptide binding]; other site 634453006236 cytochrome domain interface [polypeptide binding]; other site 634453006237 active site 634453006238 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 634453006239 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 634453006240 putative substrate translocation pore; other site 634453006241 SnoaL-like domain; Region: SnoaL_4; pfam13577 634453006242 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634453006243 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453006244 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 634453006245 putative substrate binding pocket [chemical binding]; other site 634453006246 dimerization interface [polypeptide binding]; other site 634453006247 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 634453006248 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 634453006249 dimer interface [polypeptide binding]; other site 634453006250 conserved gate region; other site 634453006251 putative PBP binding loops; other site 634453006252 ABC-ATPase subunit interface; other site 634453006253 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 634453006254 ABC-ATPase subunit interface; other site 634453006255 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453006256 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453006257 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634453006258 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 634453006259 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 634453006260 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 634453006261 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 634453006262 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453006263 Walker A/P-loop; other site 634453006264 ATP binding site [chemical binding]; other site 634453006265 Q-loop/lid; other site 634453006266 ABC transporter signature motif; other site 634453006267 Walker B; other site 634453006268 D-loop; other site 634453006269 H-loop/switch region; other site 634453006270 TOBE domain; Region: TOBE_2; pfam08402 634453006271 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 634453006272 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 634453006273 tetrameric interface [polypeptide binding]; other site 634453006274 NAD binding site [chemical binding]; other site 634453006275 catalytic residues [active] 634453006276 substrate binding site [chemical binding]; other site 634453006277 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 634453006278 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 634453006279 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 634453006280 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 634453006281 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 634453006282 Sel1-like repeats; Region: SEL1; smart00671 634453006283 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634453006284 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 634453006285 N-terminal plug; other site 634453006286 ligand-binding site [chemical binding]; other site 634453006287 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 634453006288 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634453006289 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 634453006290 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 634453006291 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634453006292 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453006293 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634453006294 LysR substrate binding domain; Region: LysR_substrate; pfam03466 634453006295 dimerization interface [polypeptide binding]; other site 634453006296 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 634453006297 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 634453006298 [2Fe-2S] cluster binding site [ion binding]; other site 634453006299 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 634453006300 hydrophobic ligand binding site; other site 634453006301 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 634453006302 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 634453006303 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634453006304 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 634453006305 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 634453006306 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 634453006307 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 634453006308 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634453006309 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 634453006310 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634453006311 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 634453006312 tetramerization interface [polypeptide binding]; other site 634453006313 NAD(P) binding site [chemical binding]; other site 634453006314 catalytic residues [active] 634453006315 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 634453006316 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 634453006317 putative substrate translocation pore; other site 634453006318 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 634453006319 homotrimer interface [polypeptide binding]; other site 634453006320 Walker A motif; other site 634453006321 GTP binding site [chemical binding]; other site 634453006322 Walker B motif; other site 634453006323 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 634453006324 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 634453006325 putative dimer interface [polypeptide binding]; other site 634453006326 active site pocket [active] 634453006327 putative cataytic base [active] 634453006328 cobalamin synthase; Reviewed; Region: cobS; PRK00235 634453006329 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 634453006330 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 634453006331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453006332 homodimer interface [polypeptide binding]; other site 634453006333 catalytic residue [active] 634453006334 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 634453006335 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 634453006336 putative FMN binding site [chemical binding]; other site 634453006337 cobyric acid synthase; Provisional; Region: PRK00784 634453006338 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 634453006339 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 634453006340 catalytic triad [active] 634453006341 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 634453006342 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 634453006343 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 634453006344 homodimer interface [polypeptide binding]; other site 634453006345 Walker A motif; other site 634453006346 ATP binding site [chemical binding]; other site 634453006347 hydroxycobalamin binding site [chemical binding]; other site 634453006348 Walker B motif; other site 634453006349 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 634453006350 catalytic core [active] 634453006351 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 634453006352 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 634453006353 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 634453006354 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 634453006355 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 634453006356 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 634453006357 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 634453006358 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 634453006359 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 634453006360 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 634453006361 dimer interface [polypeptide binding]; other site 634453006362 [2Fe-2S] cluster binding site [ion binding]; other site 634453006363 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 634453006364 MarR family; Region: MarR; pfam01047 634453006365 Fusaric acid resistance protein family; Region: FUSC; pfam04632 634453006366 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634453006367 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 634453006368 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 634453006369 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 634453006370 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 634453006371 substrate binding site [chemical binding]; other site 634453006372 oxyanion hole (OAH) forming residues; other site 634453006373 trimer interface [polypeptide binding]; other site 634453006374 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 634453006375 Flavin Reductases; Region: FlaRed; cl00801 634453006376 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 634453006377 dimer interface [polypeptide binding]; other site 634453006378 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 634453006379 putative PBP binding regions; other site 634453006380 ABC-ATPase subunit interface; other site 634453006381 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 634453006382 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453006383 Walker A/P-loop; other site 634453006384 ATP binding site [chemical binding]; other site 634453006385 Q-loop/lid; other site 634453006386 ABC transporter signature motif; other site 634453006387 Walker B; other site 634453006388 D-loop; other site 634453006389 H-loop/switch region; other site 634453006390 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 634453006391 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 634453006392 intersubunit interface [polypeptide binding]; other site 634453006393 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 634453006394 metal binding site 2 [ion binding]; metal-binding site 634453006395 putative DNA binding helix; other site 634453006396 metal binding site 1 [ion binding]; metal-binding site 634453006397 dimer interface [polypeptide binding]; other site 634453006398 structural Zn2+ binding site [ion binding]; other site 634453006399 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 634453006400 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 634453006401 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 634453006402 putative deacylase active site [active] 634453006403 Uncharacterized protein conserved in bacteria (DUF2272); Region: DUF2272; pfam10030 634453006404 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 634453006405 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 634453006406 dimer interface [polypeptide binding]; other site 634453006407 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453006408 catalytic residue [active] 634453006409 GMP synthase; Reviewed; Region: guaA; PRK00074 634453006410 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 634453006411 AMP/PPi binding site [chemical binding]; other site 634453006412 candidate oxyanion hole; other site 634453006413 catalytic triad [active] 634453006414 potential glutamine specificity residues [chemical binding]; other site 634453006415 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 634453006416 ATP Binding subdomain [chemical binding]; other site 634453006417 Ligand Binding sites [chemical binding]; other site 634453006418 Dimerization subdomain; other site 634453006419 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634453006420 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 634453006421 catalytic residues [active] 634453006422 catalytic nucleophile [active] 634453006423 Presynaptic Site I dimer interface [polypeptide binding]; other site 634453006424 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634453006425 Synaptic Flat tetramer interface [polypeptide binding]; other site 634453006426 Synaptic Site I dimer interface [polypeptide binding]; other site 634453006427 DNA binding site [nucleotide binding] 634453006428 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 634453006429 DNA-binding interface [nucleotide binding]; DNA binding site 634453006430 Domain of unknown function (DUF927); Region: DUF927; pfam06048 634453006431 Toprim domain; Region: Toprim_3; pfam13362 634453006432 Helix-turn-helix domain; Region: HTH_17; pfam12728 634453006433 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634453006434 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453006435 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453006436 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 634453006437 salt bridge; other site 634453006438 non-specific DNA binding site [nucleotide binding]; other site 634453006439 sequence-specific DNA binding site [nucleotide binding]; other site 634453006440 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453006441 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453006442 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 634453006443 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 634453006444 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 634453006445 DNA binding residues [nucleotide binding] 634453006446 HNH endonuclease; Region: HNH_2; pfam13391 634453006447 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 634453006448 active site 634453006449 DNA binding site [nucleotide binding] 634453006450 Int/Topo IB signature motif; other site 634453006451 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 634453006452 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 634453006453 putative substrate translocation pore; other site 634453006454 Phage shock protein B; Region: PspB; cl05946 634453006455 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 634453006456 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 634453006457 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 634453006458 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634453006459 catalytic residue [active] 634453006460 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 634453006461 L-lactate permease; Region: Lactate_perm; cl00701 634453006462 Uncharacterized conserved protein [Function unknown]; Region: COG1359 634453006463 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 634453006464 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 634453006465 NADP binding site [chemical binding]; other site 634453006466 homopentamer interface [polypeptide binding]; other site 634453006467 substrate binding site [chemical binding]; other site 634453006468 active site 634453006469 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 634453006470 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 634453006471 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 634453006472 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 634453006473 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 634453006474 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 634453006475 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634453006476 catalytic residue [active] 634453006477 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 634453006478 Sporulation related domain; Region: SPOR; pfam05036 634453006479 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 634453006480 ABC-2 type transporter; Region: ABC2_membrane; cl17235 634453006481 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 634453006482 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 634453006483 Walker A/P-loop; other site 634453006484 ATP binding site [chemical binding]; other site 634453006485 Q-loop/lid; other site 634453006486 ABC transporter signature motif; other site 634453006487 Walker B; other site 634453006488 D-loop; other site 634453006489 H-loop/switch region; other site 634453006490 Uncharacterized conserved protein [Function unknown]; Region: COG1742 634453006491 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 634453006492 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 634453006493 Cl binding site [ion binding]; other site 634453006494 oligomer interface [polypeptide binding]; other site 634453006495 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 634453006496 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 634453006497 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453006498 homodimer interface [polypeptide binding]; other site 634453006499 catalytic residue [active] 634453006500 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 634453006501 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 634453006502 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 634453006503 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 634453006504 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 634453006505 TPP-binding site [chemical binding]; other site 634453006506 dimer interface [polypeptide binding]; other site 634453006507 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 634453006508 PYR/PP interface [polypeptide binding]; other site 634453006509 dimer interface [polypeptide binding]; other site 634453006510 TPP binding site [chemical binding]; other site 634453006511 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634453006512 bifunctional transaldolase/phosoglucose isomerase; Validated; Region: PRK09533 634453006513 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 634453006514 putative active site [active] 634453006515 catalytic residue [active] 634453006516 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 634453006517 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 634453006518 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 634453006519 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 634453006520 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 634453006521 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 634453006522 active site 634453006523 motif I; other site 634453006524 motif II; other site 634453006525 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 634453006526 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 634453006527 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 634453006528 putative active site [active] 634453006529 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 634453006530 tetramer (dimer of dimers) interface [polypeptide binding]; other site 634453006531 active site 634453006532 dimer interface [polypeptide binding]; other site 634453006533 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 634453006534 AAA domain; Region: AAA_33; pfam13671 634453006535 ATP-binding site [chemical binding]; other site 634453006536 Gluconate-6-phosphate binding site [chemical binding]; other site 634453006537 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 634453006538 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 634453006539 intersubunit interface [polypeptide binding]; other site 634453006540 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 634453006541 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 634453006542 Cl- selectivity filter; other site 634453006543 Cl- binding residues [ion binding]; other site 634453006544 pore gating glutamate residue; other site 634453006545 dimer interface [polypeptide binding]; other site 634453006546 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 634453006547 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 634453006548 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 634453006549 NAD(P) binding site [chemical binding]; other site 634453006550 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 634453006551 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 634453006552 catalytic residue [active] 634453006553 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 634453006554 potassium uptake protein; Region: kup; TIGR00794 634453006555 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 634453006556 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 634453006557 FeS/SAM binding site; other site 634453006558 HemN C-terminal domain; Region: HemN_C; pfam06969 634453006559 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 634453006560 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 634453006561 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 634453006562 Walker A/P-loop; other site 634453006563 ATP binding site [chemical binding]; other site 634453006564 Q-loop/lid; other site 634453006565 ABC transporter signature motif; other site 634453006566 Walker B; other site 634453006567 D-loop; other site 634453006568 H-loop/switch region; other site 634453006569 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 634453006570 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 634453006571 Walker A/P-loop; other site 634453006572 ATP binding site [chemical binding]; other site 634453006573 Q-loop/lid; other site 634453006574 ABC transporter signature motif; other site 634453006575 Walker B; other site 634453006576 D-loop; other site 634453006577 H-loop/switch region; other site 634453006578 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 634453006579 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 634453006580 TM-ABC transporter signature motif; other site 634453006581 HEAT repeats; Region: HEAT_2; pfam13646 634453006582 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 634453006583 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 634453006584 TM-ABC transporter signature motif; other site 634453006585 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 634453006586 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 634453006587 putative ligand binding site [chemical binding]; other site 634453006588 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 634453006589 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634453006590 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 634453006591 dimer interface [polypeptide binding]; other site 634453006592 phosphorylation site [posttranslational modification] 634453006593 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 634453006594 ATP binding site [chemical binding]; other site 634453006595 Mg2+ binding site [ion binding]; other site 634453006596 G-X-G motif; other site 634453006597 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 634453006598 Response regulator receiver domain; Region: Response_reg; pfam00072 634453006599 active site 634453006600 phosphorylation site [posttranslational modification] 634453006601 intermolecular recognition site; other site 634453006602 dimerization interface [polypeptide binding]; other site 634453006603 Response regulator receiver domain; Region: Response_reg; pfam00072 634453006604 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 634453006605 active site 634453006606 phosphorylation site [posttranslational modification] 634453006607 intermolecular recognition site; other site 634453006608 dimerization interface [polypeptide binding]; other site 634453006609 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 634453006610 DNA binding residues [nucleotide binding] 634453006611 HTH-like domain; Region: HTH_21; pfam13276 634453006612 Integrase core domain; Region: rve; pfam00665 634453006613 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453006614 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 634453006615 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 634453006616 UreF; Region: UreF; pfam01730 634453006617 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 634453006618 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 634453006619 dimer interface [polypeptide binding]; other site 634453006620 catalytic residues [active] 634453006621 urease subunit alpha; Reviewed; Region: ureC; PRK13207 634453006622 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 634453006623 subunit interactions [polypeptide binding]; other site 634453006624 active site 634453006625 flap region; other site 634453006626 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 634453006627 alpha-beta subunit interface [polypeptide binding]; other site 634453006628 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 634453006629 alpha-gamma subunit interface [polypeptide binding]; other site 634453006630 beta-gamma subunit interface [polypeptide binding]; other site 634453006631 UreD urease accessory protein; Region: UreD; pfam01774 634453006632 High-affinity nickel-transport protein; Region: NicO; cl00964 634453006633 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 634453006634 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 634453006635 dimer interface [polypeptide binding]; other site 634453006636 PYR/PP interface [polypeptide binding]; other site 634453006637 TPP binding site [chemical binding]; other site 634453006638 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634453006639 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 634453006640 TPP-binding site [chemical binding]; other site 634453006641 dimer interface [polypeptide binding]; other site 634453006642 Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]; Region: phoE; COG0406 634453006643 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 634453006644 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 634453006645 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 634453006646 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 634453006647 heme binding site [chemical binding]; other site 634453006648 ferroxidase pore; other site 634453006649 ferroxidase diiron center [ion binding]; other site 634453006650 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 634453006651 ArsC family; Region: ArsC; pfam03960 634453006652 putative catalytic residues [active] 634453006653 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 634453006654 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 634453006655 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 634453006656 dimerization interface [polypeptide binding]; other site 634453006657 putative DNA binding site [nucleotide binding]; other site 634453006658 putative Zn2+ binding site [ion binding]; other site 634453006659 peroxiredoxin; Provisional; Region: PRK13189 634453006660 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 634453006661 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 634453006662 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 634453006663 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 634453006664 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 634453006665 Sulfate transporter family; Region: Sulfate_transp; pfam00916 634453006666 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 634453006667 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 634453006668 catalytic residues [active] 634453006669 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453006670 Pirin-related protein [General function prediction only]; Region: COG1741 634453006671 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 634453006672 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 634453006673 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634453006674 HlyD family secretion protein; Region: HlyD_3; pfam13437 634453006675 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 634453006676 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 634453006677 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634453006678 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453006679 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 634453006680 putative dimerization interface [polypeptide binding]; other site 634453006681 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453006682 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634453006683 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 634453006684 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 634453006685 putative substrate translocation pore; other site 634453006686 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453006687 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453006688 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 634453006689 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 634453006690 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 634453006691 Isochorismatase family; Region: Isochorismatase; pfam00857 634453006692 catalytic triad [active] 634453006693 conserved cis-peptide bond; other site 634453006694 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 634453006695 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634453006696 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 634453006697 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634453006698 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 634453006699 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634453006700 Cytochrome c; Region: Cytochrom_C; pfam00034 634453006701 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634453006702 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634453006703 Cytochrome c; Region: Cytochrom_C; pfam00034 634453006704 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 634453006705 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 634453006706 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 634453006707 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 634453006708 Transcriptional regulators [Transcription]; Region: MarR; COG1846 634453006709 MarR family; Region: MarR_2; pfam12802 634453006710 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453006711 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 634453006712 active site 634453006713 catalytic triad [active] 634453006714 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 634453006715 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 634453006716 Walker A motif; other site 634453006717 ATP binding site [chemical binding]; other site 634453006718 Walker B motif; other site 634453006719 arginine finger; other site 634453006720 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 634453006721 putative transposase OrfB; Reviewed; Region: PHA02517 634453006722 HTH-like domain; Region: HTH_21; pfam13276 634453006723 Integrase core domain; Region: rve; pfam00665 634453006724 Integrase core domain; Region: rve_3; pfam13683 634453006725 Transposase; Region: HTH_Tnp_1; cl17663 634453006726 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 634453006727 conjugal transfer protein TrbF; Provisional; Region: PRK13872 634453006728 conjugal transfer protein TrbL; Provisional; Region: PRK13875 634453006729 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 634453006730 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453006731 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 634453006732 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 634453006733 catalytic residues [active] 634453006734 catalytic nucleophile [active] 634453006735 Recombinase; Region: Recombinase; pfam07508 634453006736 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 634453006737 non-specific DNA binding site [nucleotide binding]; other site 634453006738 salt bridge; other site 634453006739 sequence-specific DNA binding site [nucleotide binding]; other site 634453006740 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 634453006741 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453006742 putative transposase OrfB; Reviewed; Region: PHA02517 634453006743 HTH-like domain; Region: HTH_21; pfam13276 634453006744 Integrase core domain; Region: rve; pfam00665 634453006745 Integrase core domain; Region: rve_3; pfam13683 634453006746 Transposase; Region: HTH_Tnp_1; cl17663 634453006747 Uncharacterized conserved protein (DUF2285); Region: DUF2285; pfam10074 634453006748 Replication initiator protein A; Region: RPA; pfam10134 634453006749 putative transposase OrfB; Reviewed; Region: PHA02517 634453006750 HTH-like domain; Region: HTH_21; pfam13276 634453006751 Integrase core domain; Region: rve; pfam00665 634453006752 Integrase core domain; Region: rve_3; pfam13683 634453006753 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453006754 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634453006755 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 634453006756 NAD(P) binding site [chemical binding]; other site 634453006757 active site 634453006758 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 634453006759 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 634453006760 Protein required for attachment to host cells; Region: Host_attach; pfam10116 634453006761 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 634453006762 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 634453006763 XdhC Rossmann domain; Region: XdhC_C; pfam13478 634453006764 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 634453006765 Ligand binding site; other site 634453006766 metal-binding site 634453006767 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 634453006768 homotrimer interaction site [polypeptide binding]; other site 634453006769 putative active site [active] 634453006770 CHAP domain; Region: CHAP; cl17642 634453006771 glycine dehydrogenase; Provisional; Region: PRK05367 634453006772 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 634453006773 tetramer interface [polypeptide binding]; other site 634453006774 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453006775 catalytic residue [active] 634453006776 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 634453006777 tetramer interface [polypeptide binding]; other site 634453006778 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453006779 catalytic residue [active] 634453006780 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 634453006781 lipoyl attachment site [posttranslational modification]; other site 634453006782 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 634453006783 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 634453006784 spermidine synthase; Provisional; Region: PRK00811 634453006785 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 634453006786 S-adenosylmethionine binding site [chemical binding]; other site 634453006787 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 634453006788 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634453006789 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453006790 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 634453006791 putative effector binding pocket; other site 634453006792 dimerization interface [polypeptide binding]; other site 634453006793 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 634453006794 active site 634453006795 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 634453006796 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 634453006797 active site 634453006798 (T/H)XGH motif; other site 634453006799 DNA gyrase, A subunit; Region: gyrA; TIGR01063 634453006800 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 634453006801 CAP-like domain; other site 634453006802 active site 634453006803 primary dimer interface [polypeptide binding]; other site 634453006804 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634453006805 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634453006806 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634453006807 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634453006808 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 634453006809 FMN binding site [chemical binding]; other site 634453006810 substrate binding site [chemical binding]; other site 634453006811 putative catalytic residue [active] 634453006812 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 634453006813 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 634453006814 RNase E interface [polypeptide binding]; other site 634453006815 trimer interface [polypeptide binding]; other site 634453006816 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 634453006817 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 634453006818 RNase E interface [polypeptide binding]; other site 634453006819 trimer interface [polypeptide binding]; other site 634453006820 active site 634453006821 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 634453006822 putative nucleic acid binding region [nucleotide binding]; other site 634453006823 G-X-X-G motif; other site 634453006824 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 634453006825 RNA binding site [nucleotide binding]; other site 634453006826 domain interface; other site 634453006827 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 634453006828 16S/18S rRNA binding site [nucleotide binding]; other site 634453006829 S13e-L30e interaction site [polypeptide binding]; other site 634453006830 25S rRNA binding site [nucleotide binding]; other site 634453006831 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 634453006832 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 634453006833 RNA binding site [nucleotide binding]; other site 634453006834 active site 634453006835 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 634453006836 Permease; Region: Permease; pfam02405 634453006837 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 634453006838 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 634453006839 Walker A/P-loop; other site 634453006840 ATP binding site [chemical binding]; other site 634453006841 Q-loop/lid; other site 634453006842 ABC transporter signature motif; other site 634453006843 Walker B; other site 634453006844 D-loop; other site 634453006845 H-loop/switch region; other site 634453006846 mce related protein; Region: MCE; pfam02470 634453006847 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 634453006848 Protein of unknown function (DUF330); Region: DUF330; pfam03886 634453006849 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634453006850 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 634453006851 putative ADP-binding pocket [chemical binding]; other site 634453006852 Clostridial hydrophobic W; Region: ChW; cl02763 634453006853 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 634453006854 binding surface 634453006855 TPR motif; other site 634453006856 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 634453006857 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 634453006858 active site 634453006859 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 634453006860 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634453006861 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 634453006862 Sel1-like repeats; Region: SEL1; smart00671 634453006863 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 634453006864 Sel1-like repeats; Region: SEL1; smart00671 634453006865 Sel1-like repeats; Region: SEL1; smart00671 634453006866 Sel1 repeat; Region: Sel1; cl02723 634453006867 Sel1-like repeats; Region: SEL1; smart00671 634453006868 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 634453006869 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634453006870 HlyD family secretion protein; Region: HlyD_3; pfam13437 634453006871 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 634453006872 putative active site [active] 634453006873 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 634453006874 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634453006875 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453006876 Walker A/P-loop; other site 634453006877 ATP binding site [chemical binding]; other site 634453006878 Q-loop/lid; other site 634453006879 ABC transporter signature motif; other site 634453006880 Walker B; other site 634453006881 D-loop; other site 634453006882 H-loop/switch region; other site 634453006883 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 634453006884 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 634453006885 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 634453006886 substrate binding pocket [chemical binding]; other site 634453006887 dimer interface [polypeptide binding]; other site 634453006888 inhibitor binding site; inhibition site 634453006889 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 634453006890 B12 binding site [chemical binding]; other site 634453006891 cobalt ligand [ion binding]; other site 634453006892 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 634453006893 Colicin V production protein; Region: Colicin_V; pfam02674 634453006894 amidophosphoribosyltransferase; Provisional; Region: PRK09123 634453006895 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 634453006896 active site 634453006897 tetramer interface [polypeptide binding]; other site 634453006898 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634453006899 active site 634453006900 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 634453006901 Protein of unknown function (DUF330); Region: DUF330; pfam03886 634453006902 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 634453006903 mce related protein; Region: MCE; pfam02470 634453006904 mce related protein; Region: MCE; pfam02470 634453006905 mce related protein; Region: MCE; pfam02470 634453006906 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 634453006907 Paraquat-inducible protein A; Region: PqiA; pfam04403 634453006908 Paraquat-inducible protein A; Region: PqiA; pfam04403 634453006909 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 634453006910 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 634453006911 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 634453006912 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 634453006913 active site 634453006914 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 634453006915 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 634453006916 ATP synthase subunit C; Region: ATP-synt_C; cl00466 634453006917 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 634453006918 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 634453006919 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 634453006920 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 634453006921 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 634453006922 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 634453006923 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 634453006924 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 634453006925 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 634453006926 FeS/SAM binding site; other site 634453006927 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 634453006928 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 634453006929 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 634453006930 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 634453006931 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 634453006932 dimer interface [polypeptide binding]; other site 634453006933 active site 634453006934 metal binding site [ion binding]; metal-binding site 634453006935 glutathione binding site [chemical binding]; other site 634453006936 DEAD-like helicases superfamily; Region: DEXDc; smart00487 634453006937 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 634453006938 ATP binding site [chemical binding]; other site 634453006939 Mg++ binding site [ion binding]; other site 634453006940 motif III; other site 634453006941 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 634453006942 nucleotide binding region [chemical binding]; other site 634453006943 ATP-binding site [chemical binding]; other site 634453006944 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 634453006945 RNA binding site [nucleotide binding]; other site 634453006946 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 634453006947 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 634453006948 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 634453006949 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 634453006950 23S rRNA interface [nucleotide binding]; other site 634453006951 L3 interface [polypeptide binding]; other site 634453006952 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634453006953 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 634453006954 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634453006955 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 634453006956 PhoU domain; Region: PhoU; pfam01895 634453006957 PhoU domain; Region: PhoU; pfam01895 634453006958 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 634453006959 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 634453006960 Walker A/P-loop; other site 634453006961 ATP binding site [chemical binding]; other site 634453006962 Q-loop/lid; other site 634453006963 ABC transporter signature motif; other site 634453006964 Walker B; other site 634453006965 D-loop; other site 634453006966 H-loop/switch region; other site 634453006967 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 634453006968 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 634453006969 dimer interface [polypeptide binding]; other site 634453006970 conserved gate region; other site 634453006971 putative PBP binding loops; other site 634453006972 ABC-ATPase subunit interface; other site 634453006973 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 634453006974 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 634453006975 dimer interface [polypeptide binding]; other site 634453006976 conserved gate region; other site 634453006977 putative PBP binding loops; other site 634453006978 ABC-ATPase subunit interface; other site 634453006979 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 634453006980 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 634453006981 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 634453006982 NADP binding site [chemical binding]; other site 634453006983 dimer interface [polypeptide binding]; other site 634453006984 Predicted membrane protein [Function unknown]; Region: COG1289 634453006985 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 634453006986 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 634453006987 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 634453006988 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 634453006989 protein binding site [polypeptide binding]; other site 634453006990 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 634453006991 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 634453006992 active site 634453006993 catalytic triad [active] 634453006994 oxyanion hole [active] 634453006995 OpgC protein; Region: OpgC_C; pfam10129 634453006996 Acyltransferase family; Region: Acyl_transf_3; pfam01757 634453006997 antiporter inner membrane protein; Provisional; Region: PRK11670 634453006998 Domain of unknown function DUF59; Region: DUF59; pfam01883 634453006999 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 634453007000 Walker A motif; other site 634453007001 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 634453007002 Stringent starvation protein B; Region: SspB; cl01120 634453007003 fumarate hydratase; Provisional; Region: PRK15389 634453007004 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 634453007005 Fumarase C-terminus; Region: Fumerase_C; pfam05683 634453007006 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 634453007007 dimer interface [polypeptide binding]; other site 634453007008 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 634453007009 metal binding site [ion binding]; metal-binding site 634453007010 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 634453007011 AntA/AntB antirepressor; Region: AntA; cl01430 634453007012 Putative glucoamylase; Region: Glycoamylase; pfam10091 634453007013 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 634453007014 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634453007015 hydroxyglutarate oxidase; Provisional; Region: PRK11728 634453007016 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 634453007017 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 634453007018 active site 634453007019 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 634453007020 dimer interface [polypeptide binding]; other site 634453007021 substrate binding site [chemical binding]; other site 634453007022 catalytic residues [active] 634453007023 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 634453007024 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 634453007025 putative DNA binding site [nucleotide binding]; other site 634453007026 putative Zn2+ binding site [ion binding]; other site 634453007027 AsnC family; Region: AsnC_trans_reg; pfam01037 634453007028 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 634453007029 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 634453007030 translation initiation factor IF-2; Region: IF-2; TIGR00487 634453007031 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 634453007032 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 634453007033 G1 box; other site 634453007034 putative GEF interaction site [polypeptide binding]; other site 634453007035 GTP/Mg2+ binding site [chemical binding]; other site 634453007036 Switch I region; other site 634453007037 G2 box; other site 634453007038 G3 box; other site 634453007039 Switch II region; other site 634453007040 G4 box; other site 634453007041 G5 box; other site 634453007042 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 634453007043 Translation-initiation factor 2; Region: IF-2; pfam11987 634453007044 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 634453007045 hypothetical protein; Provisional; Region: PRK09190 634453007046 Protein of unknown function (DUF448); Region: DUF448; pfam04296 634453007047 putative RNA binding cleft [nucleotide binding]; other site 634453007048 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 634453007049 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 634453007050 NusA N-terminal domain; Region: NusA_N; pfam08529 634453007051 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 634453007052 RNA binding site [nucleotide binding]; other site 634453007053 homodimer interface [polypeptide binding]; other site 634453007054 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 634453007055 G-X-X-G motif; other site 634453007056 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 634453007057 G-X-X-G motif; other site 634453007058 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 634453007059 hypothetical protein; Provisional; Region: PRK14636 634453007060 Sm and related proteins; Region: Sm_like; cl00259 634453007061 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 634453007062 putative RNA binding site [nucleotide binding]; other site 634453007063 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 634453007064 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 634453007065 Walker A motif; other site 634453007066 ATP binding site [chemical binding]; other site 634453007067 Walker B motif; other site 634453007068 arginine finger; other site 634453007069 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634453007070 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453007071 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 634453007072 putative effector binding pocket; other site 634453007073 dimerization interface [polypeptide binding]; other site 634453007074 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 634453007075 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 634453007076 substrate binding pocket [chemical binding]; other site 634453007077 membrane-bound complex binding site; other site 634453007078 hinge residues; other site 634453007079 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 634453007080 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 634453007081 dimer interface [polypeptide binding]; other site 634453007082 conserved gate region; other site 634453007083 putative PBP binding loops; other site 634453007084 ABC-ATPase subunit interface; other site 634453007085 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 634453007086 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453007087 Walker A/P-loop; other site 634453007088 ATP binding site [chemical binding]; other site 634453007089 Q-loop/lid; other site 634453007090 ABC transporter signature motif; other site 634453007091 Walker B; other site 634453007092 D-loop; other site 634453007093 H-loop/switch region; other site 634453007094 aconitate hydratase; Validated; Region: PRK09277 634453007095 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 634453007096 substrate binding site [chemical binding]; other site 634453007097 ligand binding site [chemical binding]; other site 634453007098 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 634453007099 substrate binding site [chemical binding]; other site 634453007100 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 634453007101 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453007102 Walker A/P-loop; other site 634453007103 ATP binding site [chemical binding]; other site 634453007104 Q-loop/lid; other site 634453007105 ABC transporter signature motif; other site 634453007106 Walker B; other site 634453007107 D-loop; other site 634453007108 H-loop/switch region; other site 634453007109 CcmB protein; Region: CcmB; pfam03379 634453007110 hypothetical protein; Provisional; Region: PRK10316 634453007111 YfdX protein; Region: YfdX; pfam10938 634453007112 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 634453007113 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 634453007114 dimer interface [polypeptide binding]; other site 634453007115 active site 634453007116 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 634453007117 catalytic residues [active] 634453007118 substrate binding site [chemical binding]; other site 634453007119 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 634453007120 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 634453007121 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 634453007122 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 634453007123 Dehydroquinase class II; Region: DHquinase_II; pfam01220 634453007124 trimer interface [polypeptide binding]; other site 634453007125 active site 634453007126 dimer interface [polypeptide binding]; other site 634453007127 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 634453007128 carboxyltransferase (CT) interaction site; other site 634453007129 biotinylation site [posttranslational modification]; other site 634453007130 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 634453007131 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 634453007132 ATP-grasp domain; Region: ATP-grasp_4; cl17255 634453007133 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 634453007134 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 634453007135 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 634453007136 putative substrate translocation pore; other site 634453007137 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 634453007138 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 634453007139 ThiC-associated domain; Region: ThiC-associated; pfam13667 634453007140 ThiC family; Region: ThiC; pfam01964 634453007141 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 634453007142 Iron permease FTR1 family; Region: FTR1; cl00475 634453007143 Fe2+ transport protein; Region: Iron_transport; cl01377 634453007144 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634453007145 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 634453007146 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 634453007147 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634453007148 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 634453007149 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453007150 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 634453007151 dimerization interface [polypeptide binding]; other site 634453007152 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 634453007153 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 634453007154 inhibitor-cofactor binding pocket; inhibition site 634453007155 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453007156 catalytic residue [active] 634453007157 Synuclein; Region: Synuclein; pfam01387 634453007158 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 634453007159 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 634453007160 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 634453007161 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 634453007162 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 634453007163 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 634453007164 GatB domain; Region: GatB_Yqey; smart00845 634453007165 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 634453007166 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634453007167 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453007168 Walker A/P-loop; other site 634453007169 ATP binding site [chemical binding]; other site 634453007170 Q-loop/lid; other site 634453007171 ABC transporter signature motif; other site 634453007172 Walker B; other site 634453007173 D-loop; other site 634453007174 H-loop/switch region; other site 634453007175 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 634453007176 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 634453007177 minor groove reading motif; other site 634453007178 helix-hairpin-helix signature motif; other site 634453007179 substrate binding pocket [chemical binding]; other site 634453007180 active site 634453007181 ferrochelatase; Reviewed; Region: hemH; PRK00035 634453007182 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 634453007183 C-terminal domain interface [polypeptide binding]; other site 634453007184 active site 634453007185 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 634453007186 active site 634453007187 N-terminal domain interface [polypeptide binding]; other site 634453007188 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 634453007189 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 634453007190 minor groove reading motif; other site 634453007191 helix-hairpin-helix signature motif; other site 634453007192 substrate binding pocket [chemical binding]; other site 634453007193 active site 634453007194 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 634453007195 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 634453007196 DNA binding and oxoG recognition site [nucleotide binding] 634453007197 Protein of unknown function (DUF721); Region: DUF721; cl02324 634453007198 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 634453007199 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 634453007200 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634453007201 catalytic residue [active] 634453007202 Sporulation related domain; Region: SPOR; cl10051 634453007203 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 634453007204 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 634453007205 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 634453007206 HIGH motif; other site 634453007207 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 634453007208 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634453007209 active site 634453007210 KMSKS motif; other site 634453007211 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 634453007212 tRNA binding surface [nucleotide binding]; other site 634453007213 Lipopolysaccharide-assembly; Region: LptE; pfam04390 634453007214 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 634453007215 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 634453007216 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 634453007217 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634453007218 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634453007219 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 634453007220 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 634453007221 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 634453007222 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 634453007223 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 634453007224 Ligand binding site [chemical binding]; other site 634453007225 Electron transfer flavoprotein domain; Region: ETF; pfam01012 634453007226 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 634453007227 hydroxyglutarate oxidase; Provisional; Region: PRK11728 634453007228 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 634453007229 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 634453007230 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 634453007231 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 634453007232 FeS/SAM binding site; other site 634453007233 HemN C-terminal domain; Region: HemN_C; pfam06969 634453007234 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 634453007235 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 634453007236 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 634453007237 ligand binding site [chemical binding]; other site 634453007238 flexible hinge region; other site 634453007239 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 634453007240 putative switch regulator; other site 634453007241 non-specific DNA interactions [nucleotide binding]; other site 634453007242 DNA binding site [nucleotide binding] 634453007243 sequence specific DNA binding site [nucleotide binding]; other site 634453007244 putative cAMP binding site [chemical binding]; other site 634453007245 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 634453007246 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 634453007247 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 634453007248 protein binding site [polypeptide binding]; other site 634453007249 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 634453007250 protein binding site [polypeptide binding]; other site 634453007251 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 634453007252 nucleoside/Zn binding site; other site 634453007253 dimer interface [polypeptide binding]; other site 634453007254 catalytic motif [active] 634453007255 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 634453007256 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 634453007257 catalytic triad [active] 634453007258 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 634453007259 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 634453007260 RNA binding surface [nucleotide binding]; other site 634453007261 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 634453007262 active site 634453007263 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 634453007264 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 634453007265 S-adenosylmethionine binding site [chemical binding]; other site 634453007266 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 634453007267 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 634453007268 dimer interface [polypeptide binding]; other site 634453007269 ssDNA binding site [nucleotide binding]; other site 634453007270 tetramer (dimer of dimers) interface [polypeptide binding]; other site 634453007271 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 634453007272 O-Antigen ligase; Region: Wzy_C; pfam04932 634453007273 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 634453007274 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 634453007275 active site 634453007276 catalytic residues [active] 634453007277 DNA binding site [nucleotide binding] 634453007278 Int/Topo IB signature motif; other site 634453007279 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634453007280 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 634453007281 catalytic residues [active] 634453007282 catalytic nucleophile [active] 634453007283 Presynaptic Site I dimer interface [polypeptide binding]; other site 634453007284 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634453007285 Synaptic Flat tetramer interface [polypeptide binding]; other site 634453007286 Synaptic Site I dimer interface [polypeptide binding]; other site 634453007287 DNA binding site [nucleotide binding] 634453007288 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 634453007289 DNA-binding interface [nucleotide binding]; DNA binding site 634453007290 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453007291 DEAD-like helicases superfamily; Region: DEXDc; smart00487 634453007292 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 634453007293 ATP binding site [chemical binding]; other site 634453007294 putative Mg++ binding site [ion binding]; other site 634453007295 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453007296 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453007297 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634453007298 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634453007299 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 634453007300 putative ADP-binding pocket [chemical binding]; other site 634453007301 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 634453007302 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 634453007303 active site 634453007304 HIGH motif; other site 634453007305 dimer interface [polypeptide binding]; other site 634453007306 KMSKS motif; other site 634453007307 protease TldD; Provisional; Region: tldD; PRK10735 634453007308 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 634453007309 catalytic core [active] 634453007310 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 634453007311 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 634453007312 NAD binding site [chemical binding]; other site 634453007313 substrate binding site [chemical binding]; other site 634453007314 homodimer interface [polypeptide binding]; other site 634453007315 active site 634453007316 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 634453007317 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 634453007318 substrate binding site; other site 634453007319 tetramer interface; other site 634453007320 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 634453007321 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 634453007322 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 634453007323 NADP binding site [chemical binding]; other site 634453007324 active site 634453007325 putative substrate binding site [chemical binding]; other site 634453007326 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 634453007327 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 634453007328 Probable Catalytic site; other site 634453007329 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 634453007330 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 634453007331 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 634453007332 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 634453007333 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 634453007334 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 634453007335 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634453007336 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 634453007337 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 634453007338 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 634453007339 putative C-terminal domain interface [polypeptide binding]; other site 634453007340 putative GSH binding site (G-site) [chemical binding]; other site 634453007341 putative dimer interface [polypeptide binding]; other site 634453007342 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 634453007343 putative N-terminal domain interface [polypeptide binding]; other site 634453007344 putative dimer interface [polypeptide binding]; other site 634453007345 putative substrate binding pocket (H-site) [chemical binding]; other site 634453007346 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 634453007347 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 634453007348 Ligand Binding Site [chemical binding]; other site 634453007349 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 634453007350 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 634453007351 catalytic loop [active] 634453007352 iron binding site [ion binding]; other site 634453007353 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 634453007354 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 634453007355 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634453007356 catalytic residue [active] 634453007357 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 634453007358 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634453007359 catalytic residue [active] 634453007360 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 634453007361 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 634453007362 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 634453007363 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 634453007364 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 634453007365 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 634453007366 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 634453007367 active site 634453007368 HIGH motif; other site 634453007369 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 634453007370 KMSKS motif; other site 634453007371 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 634453007372 tRNA binding surface [nucleotide binding]; other site 634453007373 anticodon binding site; other site 634453007374 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 634453007375 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634453007376 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 634453007377 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 634453007378 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 634453007379 catalytic residues [active] 634453007380 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 634453007381 Family description; Region: UvrD_C_2; pfam13538 634453007382 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 634453007383 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 634453007384 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 634453007385 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 634453007386 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634453007387 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 634453007388 active site 634453007389 phosphorylation site [posttranslational modification] 634453007390 intermolecular recognition site; other site 634453007391 dimerization interface [polypeptide binding]; other site 634453007392 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 634453007393 DNA binding site [nucleotide binding] 634453007394 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 634453007395 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 634453007396 active site 634453007397 substrate binding site [chemical binding]; other site 634453007398 metal binding site [ion binding]; metal-binding site 634453007399 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 634453007400 dihydropteroate synthase; Region: DHPS; TIGR01496 634453007401 substrate binding pocket [chemical binding]; other site 634453007402 dimer interface [polypeptide binding]; other site 634453007403 inhibitor binding site; inhibition site 634453007404 FtsH Extracellular; Region: FtsH_ext; pfam06480 634453007405 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 634453007406 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 634453007407 Walker A motif; other site 634453007408 ATP binding site [chemical binding]; other site 634453007409 Walker B motif; other site 634453007410 arginine finger; other site 634453007411 Peptidase family M41; Region: Peptidase_M41; pfam01434 634453007412 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 634453007413 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 634453007414 Ligand Binding Site [chemical binding]; other site 634453007415 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 634453007416 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 634453007417 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 634453007418 ligand binding site [chemical binding]; other site 634453007419 translocation protein TolB; Provisional; Region: tolB; PRK05137 634453007420 TolB amino-terminal domain; Region: TolB_N; pfam04052 634453007421 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 634453007422 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 634453007423 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634453007424 TolR protein; Region: tolR; TIGR02801 634453007425 TolQ protein; Region: tolQ; TIGR02796 634453007426 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 634453007427 active site 634453007428 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 634453007429 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 634453007430 Walker A motif; other site 634453007431 ATP binding site [chemical binding]; other site 634453007432 Walker B motif; other site 634453007433 arginine finger; other site 634453007434 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 634453007435 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 634453007436 RuvA N terminal domain; Region: RuvA_N; pfam01330 634453007437 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 634453007438 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 634453007439 active site 634453007440 putative DNA-binding cleft [nucleotide binding]; other site 634453007441 dimer interface [polypeptide binding]; other site 634453007442 hypothetical protein; Validated; Region: PRK00110 634453007443 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 634453007444 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 634453007445 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 634453007446 nucleotide binding region [chemical binding]; other site 634453007447 ATP-binding site [chemical binding]; other site 634453007448 SEC-C motif; Region: SEC-C; pfam02810 634453007449 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 634453007450 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 634453007451 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 634453007452 heterotetramer interface [polypeptide binding]; other site 634453007453 active site pocket [active] 634453007454 cleavage site 634453007455 RDD family; Region: RDD; pfam06271 634453007456 putative mechanosensitive channel protein; Provisional; Region: PRK11465 634453007457 Mechanosensitive ion channel; Region: MS_channel; pfam00924 634453007458 Biofilm formation and stress response factor; Region: BsmA; pfam10014 634453007459 chaperone protein DnaJ; Provisional; Region: PRK14299 634453007460 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 634453007461 HSP70 interaction site [polypeptide binding]; other site 634453007462 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 634453007463 substrate binding site [polypeptide binding]; other site 634453007464 dimer interface [polypeptide binding]; other site 634453007465 Membrane fusogenic activity; Region: BMFP; pfam04380 634453007466 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 634453007467 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 634453007468 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 634453007469 H+ Antiporter protein; Region: 2A0121; TIGR00900 634453007470 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 634453007471 IHF dimer interface [polypeptide binding]; other site 634453007472 IHF - DNA interface [nucleotide binding]; other site 634453007473 Rhamnan synthesis protein F; Region: RgpF; pfam05045 634453007474 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 634453007475 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634453007476 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634453007477 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 634453007478 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634453007479 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 634453007480 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 634453007481 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 634453007482 active site 634453007483 NAD synthetase; Reviewed; Region: nadE; PRK02628 634453007484 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 634453007485 multimer interface [polypeptide binding]; other site 634453007486 active site 634453007487 catalytic triad [active] 634453007488 protein interface 1 [polypeptide binding]; other site 634453007489 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 634453007490 homodimer interface [polypeptide binding]; other site 634453007491 NAD binding pocket [chemical binding]; other site 634453007492 ATP binding pocket [chemical binding]; other site 634453007493 Mg binding site [ion binding]; other site 634453007494 active-site loop [active] 634453007495 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 634453007496 putative active site pocket [active] 634453007497 4-fold oligomerization interface [polypeptide binding]; other site 634453007498 metal binding residues [ion binding]; metal-binding site 634453007499 3-fold/trimer interface [polypeptide binding]; other site 634453007500 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 634453007501 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 634453007502 putative active site [active] 634453007503 oxyanion strand; other site 634453007504 catalytic triad [active] 634453007505 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 634453007506 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634453007507 Coenzyme A binding pocket [chemical binding]; other site 634453007508 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 634453007509 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 634453007510 catalytic residues [active] 634453007511 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 634453007512 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 634453007513 substrate binding site [chemical binding]; other site 634453007514 glutamase interaction surface [polypeptide binding]; other site 634453007515 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 634453007516 metal binding site [ion binding]; metal-binding site 634453007517 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 634453007518 nucleotide binding site/active site [active] 634453007519 HIT family signature motif; other site 634453007520 catalytic residue [active] 634453007521 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 634453007522 putative FMN binding site [chemical binding]; other site 634453007523 hypothetical protein; Provisional; Region: PRK09126 634453007524 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 634453007525 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 634453007526 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 634453007527 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 634453007528 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 634453007529 putative C-terminal domain interface [polypeptide binding]; other site 634453007530 putative GSH binding site (G-site) [chemical binding]; other site 634453007531 putative dimer interface [polypeptide binding]; other site 634453007532 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 634453007533 putative N-terminal domain interface [polypeptide binding]; other site 634453007534 putative dimer interface [polypeptide binding]; other site 634453007535 putative substrate binding pocket (H-site) [chemical binding]; other site 634453007536 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 634453007537 ParB-like nuclease domain; Region: ParB; smart00470 634453007538 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 634453007539 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 634453007540 P-loop; other site 634453007541 Magnesium ion binding site [ion binding]; other site 634453007542 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 634453007543 Magnesium ion binding site [ion binding]; other site 634453007544 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 634453007545 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 634453007546 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 634453007547 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 634453007548 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 634453007549 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 634453007550 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 634453007551 trmE is a tRNA modification GTPase; Region: trmE; cd04164 634453007552 G1 box; other site 634453007553 GTP/Mg2+ binding site [chemical binding]; other site 634453007554 Switch I region; other site 634453007555 G2 box; other site 634453007556 Switch II region; other site 634453007557 G3 box; other site 634453007558 G4 box; other site 634453007559 G5 box; other site 634453007560 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 634453007561 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 634453007562 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 634453007563 DNA binding site [nucleotide binding] 634453007564 active site 634453007565 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453007566 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453007567 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 634453007568 major facilitator superfamily transporter; Provisional; Region: PRK05122 634453007569 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 634453007570 putative substrate translocation pore; other site 634453007571 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 634453007572 dimer interface [polypeptide binding]; other site 634453007573 ADP-ribose binding site [chemical binding]; other site 634453007574 active site 634453007575 nudix motif; other site 634453007576 metal binding site [ion binding]; metal-binding site 634453007577 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 634453007578 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 634453007579 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 634453007580 motif II; other site 634453007581 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 634453007582 substrate binding site [chemical binding]; other site 634453007583 active site 634453007584 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 634453007585 active site 634453007586 dimer interface [polypeptide binding]; other site 634453007587 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 634453007588 Phage Terminase; Region: Terminase_1; pfam03354 634453007589 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634453007590 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 634453007591 catalytic residues [active] 634453007592 catalytic nucleophile [active] 634453007593 Presynaptic Site I dimer interface [polypeptide binding]; other site 634453007594 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634453007595 Synaptic Flat tetramer interface [polypeptide binding]; other site 634453007596 Synaptic Site I dimer interface [polypeptide binding]; other site 634453007597 DNA binding site [nucleotide binding] 634453007598 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 634453007599 DNA-binding interface [nucleotide binding]; DNA binding site 634453007600 hypothetical protein; Provisional; Region: PRK14709 634453007601 D5 N terminal like; Region: D5_N; smart00885 634453007602 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 634453007603 polymerase nucleotide-binding site; other site 634453007604 DNA-binding residues [nucleotide binding]; DNA binding site 634453007605 nucleotide binding site [chemical binding]; other site 634453007606 primase nucleotide-binding site [nucleotide binding]; other site 634453007607 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 634453007608 Transposase; Region: HTH_Tnp_1; pfam01527 634453007609 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 634453007610 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 634453007611 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634453007612 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 634453007613 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 634453007614 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634453007615 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 634453007616 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 634453007617 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 634453007618 catalytic residues [active] 634453007619 catalytic nucleophile [active] 634453007620 Presynaptic Site I dimer interface [polypeptide binding]; other site 634453007621 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634453007622 Synaptic Flat tetramer interface [polypeptide binding]; other site 634453007623 Synaptic Site I dimer interface [polypeptide binding]; other site 634453007624 DDE superfamily endonuclease; Region: DDE_4; cl17710 634453007625 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 634453007626 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 634453007627 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 634453007628 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 634453007629 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 634453007630 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 634453007631 motif II; other site 634453007632 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 634453007633 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634453007634 Walker A/P-loop; other site 634453007635 ATP binding site [chemical binding]; other site 634453007636 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 634453007637 AAA domain; Region: AAA_12; pfam13087 634453007638 C-terminal domain of Escherichia coli uncharacterized protein yjhR and similar proteins; Region: PLDc_yjhR_C_like; cd09118 634453007639 PLD-like domain; Region: PLDc_2; pfam13091 634453007640 putative active site [active] 634453007641 catalytic site [active] 634453007642 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453007643 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453007644 Domain Homologous to E6-AP Carboxyl Terminus with; Region: HECTc; smart00119 634453007645 Transposase; Region: HTH_Tnp_1; pfam01527 634453007646 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 634453007647 HTH-like domain; Region: HTH_21; pfam13276 634453007648 Integrase core domain; Region: rve; pfam00665 634453007649 Integrase core domain; Region: rve_3; pfam13683 634453007650 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 634453007651 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 634453007652 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453007653 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 634453007654 DNA binding site [nucleotide binding] 634453007655 Int/Topo IB signature motif; other site 634453007656 active site 634453007657 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 634453007658 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 634453007659 non-specific DNA binding site [nucleotide binding]; other site 634453007660 salt bridge; other site 634453007661 sequence-specific DNA binding site [nucleotide binding]; other site 634453007662 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 634453007663 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 634453007664 P-loop; other site 634453007665 Magnesium ion binding site [ion binding]; other site 634453007666 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 634453007667 Magnesium ion binding site [ion binding]; other site 634453007668 ParB-like nuclease domain; Region: ParBc; pfam02195 634453007669 KorB domain; Region: KorB; pfam08535 634453007670 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 634453007671 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 634453007672 S-adenosylmethionine binding site [chemical binding]; other site 634453007673 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 634453007674 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 634453007675 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453007676 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 634453007677 IHF dimer interface [polypeptide binding]; other site 634453007678 IHF - DNA interface [nucleotide binding]; other site 634453007679 TrwC relaxase; Region: TrwC; pfam08751 634453007680 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453007681 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453007682 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453007683 Transposase domain (DUF772); Region: DUF772; pfam05598 634453007684 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634453007685 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634453007686 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 634453007687 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 634453007688 dimer interface [polypeptide binding]; other site 634453007689 active site 634453007690 metal binding site [ion binding]; metal-binding site 634453007691 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634453007692 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 634453007693 NAD(P) binding site [chemical binding]; other site 634453007694 catalytic residues [active] 634453007695 Integrase core domain; Region: rve; pfam00665 634453007696 Winged helix-turn helix; Region: HTH_29; pfam13551 634453007697 Integrase core domain; Region: rve; pfam00665 634453007698 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634453007699 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 634453007700 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 634453007701 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 634453007702 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 634453007703 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 634453007704 Soluble P-type ATPase [General function prediction only]; Region: COG4087 634453007705 potassium-transporting ATPase subunit C; Provisional; Region: PRK13999 634453007706 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 634453007707 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 634453007708 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 634453007709 Ligand Binding Site [chemical binding]; other site 634453007710 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 634453007711 GAF domain; Region: GAF_3; pfam13492 634453007712 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 634453007713 dimer interface [polypeptide binding]; other site 634453007714 phosphorylation site [posttranslational modification] 634453007715 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 634453007716 ATP binding site [chemical binding]; other site 634453007717 Mg2+ binding site [ion binding]; other site 634453007718 G-X-G motif; other site 634453007719 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634453007720 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 634453007721 active site 634453007722 phosphorylation site [posttranslational modification] 634453007723 intermolecular recognition site; other site 634453007724 dimerization interface [polypeptide binding]; other site 634453007725 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 634453007726 DNA binding site [nucleotide binding] 634453007727 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 634453007728 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453007729 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 634453007730 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634453007731 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 634453007732 Acyltransferase family; Region: Acyl_transf_3; pfam01757 634453007733 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 634453007734 Fic/DOC family; Region: Fic; cl00960 634453007735 Replication protein C N-terminal domain; Region: RP-C; pfam03428 634453007736 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 634453007737 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453007738 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634453007739 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 634453007740 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 634453007741 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 634453007742 active site 634453007743 catalytic site [active] 634453007744 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 634453007745 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634453007746 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 634453007747 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634453007748 CrcB-like protein; Region: CRCB; cl09114 634453007749 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453007750 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 634453007751 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453007752 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453007753 Transposase domain (DUF772); Region: DUF772; pfam05598 634453007754 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 634453007755 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 634453007756 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 634453007757 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453007758 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634453007759 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453007760 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453007761 manganese transport protein MntH; Reviewed; Region: PRK00701 634453007762 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 634453007763 manganese transport regulator MntR; Provisional; Region: PRK11050 634453007764 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 634453007765 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 634453007766 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 634453007767 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 634453007768 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 634453007769 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634453007770 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 634453007771 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 634453007772 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 634453007773 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 634453007774 iron-sulfur cluster [ion binding]; other site 634453007775 [2Fe-2S] cluster binding site [ion binding]; other site 634453007776 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453007777 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 634453007778 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453007779 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634453007780 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634453007781 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634453007782 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453007783 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453007784 putative transposase OrfB; Reviewed; Region: PHA02517 634453007785 HTH-like domain; Region: HTH_21; pfam13276 634453007786 Integrase core domain; Region: rve; pfam00665 634453007787 Integrase core domain; Region: rve_3; pfam13683 634453007788 Transposase; Region: HTH_Tnp_1; cl17663 634453007789 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 634453007790 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 634453007791 Transposase domain (DUF772); Region: DUF772; pfam05598 634453007792 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453007793 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 634453007794 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 634453007795 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 634453007796 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 634453007797 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 634453007798 CRISPR-associated protein Cse2 (CRISPR_cse2); Region: CRISPR_Cse2; pfam09485 634453007799 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 634453007800 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 634453007801 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cd09693 634453007802 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 634453007803 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 634453007804 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 634453007805 Winged helix-turn helix; Region: HTH_29; pfam13551 634453007806 Integrase core domain; Region: rve; pfam00665 634453007807 Integrase core domain; Region: rve_3; pfam13683 634453007808 Predicted transcriptional regulator [Transcription]; Region: COG4190 634453007809 Abi-like protein; Region: Abi_2; pfam07751 634453007810 putative transposase OrfB; Reviewed; Region: PHA02517 634453007811 HTH-like domain; Region: HTH_21; pfam13276 634453007812 Integrase core domain; Region: rve; pfam00665 634453007813 Integrase core domain; Region: rve_3; pfam13683 634453007814 Transposase; Region: HTH_Tnp_1; cl17663 634453007815 Predicted membrane protein [Function unknown]; Region: COG3431 634453007816 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453007817 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 634453007818 apolar tunnel; other site 634453007819 heme binding site [chemical binding]; other site 634453007820 dimerization interface [polypeptide binding]; other site 634453007821 Domain of unknown function (DUF1971); Region: DUF1971; pfam09313 634453007822 Transposase domain (DUF772); Region: DUF772; pfam05598 634453007823 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453007824 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 634453007825 HTH-like domain; Region: HTH_21; pfam13276 634453007826 Integrase core domain; Region: rve; pfam00665 634453007827 Integrase core domain; Region: rve_3; pfam13683 634453007828 Transposase; Region: HTH_Tnp_1; pfam01527 634453007829 bifunctional antitoxin/transcriptional repressor RelB; Provisional; Region: PRK11235 634453007830 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 634453007831 Abi-like protein; Region: Abi_2; cl01988 634453007832 myosin-cross-reactive antigen; Provisional; Region: PRK13977 634453007833 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453007834 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 634453007835 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453007836 Transposase domain (DUF772); Region: DUF772; pfam05598 634453007837 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 634453007838 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453007839 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 634453007840 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 634453007841 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 634453007842 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634453007843 Transposase domain (DUF772); Region: DUF772; pfam05598 634453007844 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453007845 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 634453007846 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 634453007847 IHF dimer interface [polypeptide binding]; other site 634453007848 IHF - DNA interface [nucleotide binding]; other site 634453007849 putative transposase OrfB; Reviewed; Region: PHA02517 634453007850 HTH-like domain; Region: HTH_21; pfam13276 634453007851 Integrase core domain; Region: rve; pfam00665 634453007852 Integrase core domain; Region: rve_3; pfam13683 634453007853 Transposase; Region: HTH_Tnp_1; cl17663 634453007854 PemK-like protein; Region: PemK; cl00995 634453007855 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 634453007856 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 634453007857 oligomeric interface; other site 634453007858 putative active site [active] 634453007859 homodimer interface [polypeptide binding]; other site 634453007860 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 634453007861 Integrase core domain; Region: rve_3; pfam13683 634453007862 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453007863 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 634453007864 DNA-binding interface [nucleotide binding]; DNA binding site 634453007865 hypothetical protein; Provisional; Region: PRK10621 634453007866 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 634453007867 DDE superfamily endonuclease; Region: DDE_5; pfam13546 634453007868 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453007869 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634453007870 active site 634453007871 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 634453007872 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 634453007873 acyl-activating enzyme (AAE) consensus motif; other site 634453007874 AMP binding site [chemical binding]; other site 634453007875 active site 634453007876 CoA binding site [chemical binding]; other site 634453007877 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 634453007878 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634453007879 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 634453007880 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 634453007881 AIR synthase-related protein, sll0787 family; Region: AIR_rel_sll0787; TIGR04049 634453007882 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 634453007883 dimerization interface [polypeptide binding]; other site 634453007884 putative ATP binding site [chemical binding]; other site 634453007885 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634453007886 Coenzyme A binding pocket [chemical binding]; other site 634453007887 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 634453007888 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 634453007889 FeS/SAM binding site; other site 634453007890 Predicted amidohydrolase [General function prediction only]; Region: COG0388 634453007891 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 634453007892 putative active site [active] 634453007893 catalytic triad [active] 634453007894 putative dimer interface [polypeptide binding]; other site 634453007895 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 634453007896 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 634453007897 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 634453007898 DNA-binding site [nucleotide binding]; DNA binding site 634453007899 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 634453007900 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634453007901 homodimer interface [polypeptide binding]; other site 634453007902 catalytic residue [active] 634453007903 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 634453007904 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634453007905 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453007906 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 634453007907 dimerization interface [polypeptide binding]; other site 634453007908 substrate binding pocket [chemical binding]; other site 634453007909 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 634453007910 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 634453007911 putative substrate translocation pore; other site 634453007912 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 634453007913 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453007914 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453007915 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 634453007916 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 634453007917 AAA domain; Region: AAA_30; pfam13604 634453007918 Family description; Region: UvrD_C_2; pfam13538 634453007919 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 634453007920 active site 634453007921 catalytic residues [active] 634453007922 DNA binding site [nucleotide binding] 634453007923 Int/Topo IB signature motif; other site 634453007924 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453007925 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453007926 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453007927 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 634453007928 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 634453007929 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634453007930 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453007931 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453007932 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634453007933 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634453007934 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634453007935 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 634453007936 active site 634453007937 NTP binding site [chemical binding]; other site 634453007938 metal binding triad [ion binding]; metal-binding site 634453007939 antibiotic binding site [chemical binding]; other site 634453007940 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 634453007941 HsdM N-terminal domain; Region: HsdM_N; pfam12161 634453007942 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 634453007943 Methyltransferase domain; Region: Methyltransf_26; pfam13659 634453007944 S-adenosylmethionine binding site [chemical binding]; other site 634453007945 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 634453007946 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 634453007947 FMN binding site [chemical binding]; other site 634453007948 active site 634453007949 substrate binding site [chemical binding]; other site 634453007950 catalytic residue [active] 634453007951 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634453007952 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 634453007953 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453007954 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634453007955 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453007956 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 634453007957 putative substrate binding pocket [chemical binding]; other site 634453007958 dimerization interface [polypeptide binding]; other site 634453007959 acetylornithine deacetylase; Provisional; Region: PRK07522 634453007960 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 634453007961 metal binding site [ion binding]; metal-binding site 634453007962 putative dimer interface [polypeptide binding]; other site 634453007963 choline dehydrogenase; Validated; Region: PRK02106 634453007964 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 634453007965 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 634453007966 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 634453007967 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 634453007968 Na binding site [ion binding]; other site 634453007969 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 634453007970 homotrimer interaction site [polypeptide binding]; other site 634453007971 putative active site [active] 634453007972 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634453007973 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 634453007974 NAD(P) binding site [chemical binding]; other site 634453007975 catalytic residues [active] 634453007976 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 634453007977 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 634453007978 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 634453007979 Transposase; Region: HTH_Tnp_1; pfam01527 634453007980 HTH-like domain; Region: HTH_21; pfam13276 634453007981 Integrase core domain; Region: rve; pfam00665 634453007982 Integrase core domain; Region: rve_3; pfam13683 634453007983 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 634453007984 NMT1-like family; Region: NMT1_2; pfam13379 634453007985 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 634453007986 cheY-homologous receiver domain; Region: REC; smart00448 634453007987 ANTAR domain; Region: ANTAR; pfam03861 634453007988 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 634453007989 molybdopterin cofactor binding site; other site 634453007990 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 634453007991 molybdopterin cofactor binding site; other site 634453007992 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 634453007993 Flavodoxin; Region: Flavodoxin_1; pfam00258 634453007994 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 634453007995 FAD binding pocket [chemical binding]; other site 634453007996 conserved FAD binding motif [chemical binding]; other site 634453007997 phosphate binding motif [ion binding]; other site 634453007998 beta-alpha-beta structure motif; other site 634453007999 NAD binding pocket [chemical binding]; other site 634453008000 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453008001 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453008002 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634453008003 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 634453008004 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 634453008005 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 634453008006 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 634453008007 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 634453008008 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 634453008009 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 634453008010 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 634453008011 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 634453008012 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 634453008013 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 634453008014 sensor protein QseC; Provisional; Region: PRK10337 634453008015 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634453008016 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 634453008017 dimer interface [polypeptide binding]; other site 634453008018 phosphorylation site [posttranslational modification] 634453008019 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634453008020 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 634453008021 active site 634453008022 phosphorylation site [posttranslational modification] 634453008023 intermolecular recognition site; other site 634453008024 dimerization interface [polypeptide binding]; other site 634453008025 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 634453008026 DNA binding site [nucleotide binding] 634453008027 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 634453008028 HlyD family secretion protein; Region: HlyD_2; pfam12700 634453008029 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634453008030 HlyD family secretion protein; Region: HlyD_3; pfam13437 634453008031 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 634453008032 Outer membrane efflux protein; Region: OEP; pfam02321 634453008033 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 634453008034 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634453008035 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 634453008036 methionine synthase; Provisional; Region: PRK01207 634453008037 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 634453008038 substrate binding site [chemical binding]; other site 634453008039 THF binding site; other site 634453008040 zinc-binding site [ion binding]; other site 634453008041 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634453008042 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453008043 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 634453008044 putative dimerization interface [polypeptide binding]; other site 634453008045 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634453008046 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453008047 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453008048 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 634453008049 non-specific DNA binding site [nucleotide binding]; other site 634453008050 salt bridge; other site 634453008051 sequence-specific DNA binding site [nucleotide binding]; other site 634453008052 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 634453008053 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 634453008054 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 634453008055 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 634453008056 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 634453008057 arsenical pump membrane protein; Provisional; Region: PRK15445 634453008058 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 634453008059 transmembrane helices; other site 634453008060 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 634453008061 ArsC family; Region: ArsC; pfam03960 634453008062 catalytic residues [active] 634453008063 Protein of unknown function DUF45; Region: DUF45; pfam01863 634453008064 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 634453008065 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 634453008066 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 634453008067 ATP binding site [chemical binding]; other site 634453008068 putative Mg++ binding site [ion binding]; other site 634453008069 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634453008070 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634453008071 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634453008072 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 634453008073 HsdM N-terminal domain; Region: HsdM_N; pfam12161 634453008074 Methyltransferase domain; Region: Methyltransf_26; pfam13659 634453008075 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 634453008076 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634453008077 HTH-like domain; Region: HTH_21; pfam13276 634453008078 Integrase core domain; Region: rve; pfam00665 634453008079 Integrase core domain; Region: rve_3; pfam13683 634453008080 Transposase; Region: HTH_Tnp_1; pfam01527 634453008081 CCC1-related family of proteins; Region: CCC1_like; cl00278 634453008082 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 634453008083 ArsC family; Region: ArsC; pfam03960 634453008084 catalytic residues [active] 634453008085 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 634453008086 Transposase; Region: HTH_Tnp_1; cl17663 634453008087 putative transposase OrfB; Reviewed; Region: PHA02517 634453008088 HTH-like domain; Region: HTH_21; pfam13276 634453008089 Integrase core domain; Region: rve; pfam00665 634453008090 Integrase core domain; Region: rve_3; pfam13683 634453008091 Integrase core domain; Region: rve; pfam00665 634453008092 Integrase core domain; Region: rve_3; pfam13683 634453008093 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634453008094 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634453008095 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 634453008096 putative substrate binding pocket [chemical binding]; other site 634453008097 putative dimerization interface [polypeptide binding]; other site 634453008098 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 634453008099 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 634453008100 Transposase; Region: HTH_Tnp_1; cl17663 634453008101 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634453008102 HTH-like domain; Region: HTH_21; pfam13276 634453008103 Integrase core domain; Region: rve; pfam00665 634453008104 Integrase core domain; Region: rve_3; pfam13683 634453008105 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 634453008106 oligomeric interface; other site 634453008107 putative active site [active] 634453008108 homodimer interface [polypeptide binding]; other site 634453008109 Integrase core domain; Region: rve; pfam00665 634453008110 Winged helix-turn helix; Region: HTH_29; pfam13551 634453008111 Integrase core domain; Region: rve; pfam00665 634453008112 Transposase; Region: HTH_Tnp_1; pfam01527 634453008113 HTH-like domain; Region: HTH_21; pfam13276 634453008114 Integrase core domain; Region: rve; pfam00665 634453008115 Integrase core domain; Region: rve_3; pfam13683 634453008116 K+ potassium transporter; Region: K_trans; pfam02705 634453008117 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 634453008118 HTH-like domain; Region: HTH_21; pfam13276 634453008119 Integrase core domain; Region: rve; pfam00665 634453008120 Integrase core domain; Region: rve_3; pfam13683 634453008121 Transposase; Region: HTH_Tnp_1; pfam01527 634453008122 K+ potassium transporter; Region: K_trans; cl15781 634453008123 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 634453008124 Walker A motif; other site 634453008125 ATP binding site [chemical binding]; other site 634453008126 Walker B motif; other site 634453008127 arginine finger; other site 634453008128 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 634453008129 Integrase core domain; Region: rve; pfam00665 634453008130 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453008131 TrwC relaxase; Region: TrwC; pfam08751 634453008132 Integrase core domain; Region: rve; pfam00665 634453008133 Integrase core domain; Region: rve_3; pfam13683 634453008134 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453008135 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 634453008136 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 634453008137 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 634453008138 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634453008139 catalytic residue [active] 634453008140 Dot/Icm secretion system ATPase DotB; Region: dot_icm_DotB; TIGR02524 634453008141 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 634453008142 Walker A motif; other site 634453008143 ATP binding site [chemical binding]; other site 634453008144 Walker B motif; other site 634453008145 RelB antitoxin; Region: RelB; cl01171 634453008146 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 634453008147 AAA-like domain; Region: AAA_10; pfam12846 634453008148 Transposase; Region: HTH_Tnp_1; pfam01527 634453008149 HTH-like domain; Region: HTH_21; pfam13276 634453008150 Integrase core domain; Region: rve; pfam00665 634453008151 Integrase core domain; Region: rve_3; pfam13683 634453008152 Protein of unknown function (DUF2859); Region: DUF2859; cl12633 634453008153 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453008154 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634453008155 active site 634453008156 Transposase; Region: HTH_Tnp_1; cl17663 634453008157 HTH-like domain; Region: HTH_21; pfam13276 634453008158 Integrase core domain; Region: rve; pfam00665 634453008159 Integrase core domain; Region: rve_3; pfam13683 634453008160 Hint domain; Region: Hint_2; pfam13403 634453008161 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634453008162 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453008163 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 634453008164 putative active site [active] 634453008165 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 634453008166 HTH-like domain; Region: HTH_21; pfam13276 634453008167 Integrase core domain; Region: rve; pfam00665 634453008168 Integrase core domain; Region: rve_3; pfam13683 634453008169 Transposase; Region: HTH_Tnp_1; pfam01527 634453008170 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 634453008171 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 634453008172 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 634453008173 active site 634453008174 DNA binding site [nucleotide binding] 634453008175 Int/Topo IB signature motif; other site 634453008176 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 634453008177 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 634453008178 Outer membrane efflux protein; Region: OEP; pfam02321 634453008179 Outer membrane efflux protein; Region: OEP; pfam02321 634453008180 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 634453008181 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 634453008182 DNA binding residues [nucleotide binding] 634453008183 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 634453008184 dimer interface [polypeptide binding]; other site 634453008185 putative metal binding site [ion binding]; other site 634453008186 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 634453008187 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 634453008188 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 634453008189 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 634453008190 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 634453008191 Soluble P-type ATPase [General function prediction only]; Region: COG4087 634453008192 potassium-transporting ATPase subunit C; Provisional; Region: PRK13999 634453008193 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 634453008194 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 634453008195 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 634453008196 Ligand Binding Site [chemical binding]; other site 634453008197 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 634453008198 GAF domain; Region: GAF_3; pfam13492 634453008199 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 634453008200 dimer interface [polypeptide binding]; other site 634453008201 phosphorylation site [posttranslational modification] 634453008202 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 634453008203 ATP binding site [chemical binding]; other site 634453008204 Mg2+ binding site [ion binding]; other site 634453008205 G-X-G motif; other site 634453008206 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634453008207 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 634453008208 active site 634453008209 phosphorylation site [posttranslational modification] 634453008210 intermolecular recognition site; other site 634453008211 dimerization interface [polypeptide binding]; other site 634453008212 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 634453008213 DNA binding site [nucleotide binding] 634453008214 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634453008215 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634453008216 short chain dehydrogenase; Provisional; Region: PRK06180 634453008217 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 634453008218 NADP binding site [chemical binding]; other site 634453008219 active site 634453008220 steroid binding site; other site 634453008221 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 634453008222 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 634453008223 potential catalytic triad [active] 634453008224 conserved cys residue [active] 634453008225 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 634453008226 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 634453008227 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 634453008228 ATP binding site [chemical binding]; other site 634453008229 putative Mg++ binding site [ion binding]; other site 634453008230 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634453008231 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 634453008232 HsdM N-terminal domain; Region: HsdM_N; pfam12161 634453008233 Methyltransferase domain; Region: Methyltransf_26; pfam13659 634453008234 Helix-turn-helix domain; Region: HTH_17; pfam12728 634453008235 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 634453008236 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 634453008237 active site 634453008238 DNA binding site [nucleotide binding] 634453008239 Int/Topo IB signature motif; other site 634453008240 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 634453008241 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 634453008242 oligomeric interface; other site 634453008243 putative active site [active] 634453008244 homodimer interface [polypeptide binding]; other site 634453008245 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 634453008246 Integrase core domain; Region: rve; pfam00665 634453008247 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 634453008248 Walker A motif; other site 634453008249 ATP binding site [chemical binding]; other site 634453008250 Walker B motif; other site 634453008251 arginine finger; other site 634453008252 Post-segregation antitoxin CcdA; Region: CcdA; pfam07362 634453008253 CcdB protein; Region: CcdB; cl03380 634453008254 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 634453008255 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453008256 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634453008257 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634453008258 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 634453008259 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634453008260 Transposase; Region: HTH_Tnp_1; cl17663 634453008261 Helix-turn-helix domain; Region: HTH_28; pfam13518 634453008262 Winged helix-turn helix; Region: HTH_29; pfam13551 634453008263 Homeodomain-like domain; Region: HTH_32; pfam13565 634453008264 Integrase core domain; Region: rve; pfam00665 634453008265 Integrase core domain; Region: rve_3; pfam13683 634453008266 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 634453008267 ParB-like nuclease domain; Region: ParBc; pfam02195 634453008268 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 634453008269 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 634453008270 S-adenosylmethionine binding site [chemical binding]; other site 634453008271 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 634453008272 DEAD-like helicases superfamily; Region: DEXDc; smart00487 634453008273 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 634453008274 helicase superfamily c-terminal domain; Region: HELICc; smart00490 634453008275 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634453008276 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453008277 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634453008278 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 634453008279 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 634453008280 active site 634453008281 DNA binding site [nucleotide binding] 634453008282 Int/Topo IB signature motif; other site 634453008283 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634453008284 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 634453008285 DDE superfamily endonuclease; Region: DDE_5; cl17874 634453008286 putative transposase OrfB; Reviewed; Region: PHA02517 634453008287 HTH-like domain; Region: HTH_21; pfam13276 634453008288 Integrase core domain; Region: rve; pfam00665 634453008289 Integrase core domain; Region: rve_3; pfam13683 634453008290 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634453008291 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 634453008292 catalytic residues [active] 634453008293 catalytic nucleophile [active] 634453008294 Presynaptic Site I dimer interface [polypeptide binding]; other site 634453008295 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634453008296 Synaptic Flat tetramer interface [polypeptide binding]; other site 634453008297 Synaptic Site I dimer interface [polypeptide binding]; other site 634453008298 DNA binding site [nucleotide binding] 634453008299 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 634453008300 DNA-binding interface [nucleotide binding]; DNA binding site 634453008301 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG1569 634453008302 Conjugal transfer protein TraD; Region: TraD; pfam06412 634453008303 putative transposase OrfB; Reviewed; Region: PHA02517 634453008304 HTH-like domain; Region: HTH_21; pfam13276 634453008305 Integrase core domain; Region: rve; pfam00665 634453008306 Integrase core domain; Region: rve_3; pfam13683 634453008307 Transposase; Region: HTH_Tnp_1; cl17663 634453008308 Hint domain; Region: Hint_2; pfam13403 634453008309 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634453008310 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634453008311 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 634453008312 HTH-like domain; Region: HTH_21; pfam13276 634453008313 Integrase core domain; Region: rve; pfam00665 634453008314 Integrase core domain; Region: rve_3; pfam13683 634453008315 Transposase; Region: HTH_Tnp_1; pfam01527 634453008316 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 634453008317 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 634453008318 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 634453008319 DNA-binding interface [nucleotide binding]; DNA binding site 634453008320 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634453008321 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 634453008322 catalytic residues [active] 634453008323 catalytic nucleophile [active] 634453008324 Presynaptic Site I dimer interface [polypeptide binding]; other site 634453008325 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634453008326 Synaptic Flat tetramer interface [polypeptide binding]; other site 634453008327 Synaptic Site I dimer interface [polypeptide binding]; other site 634453008328 DNA binding site [nucleotide binding] 634453008329 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 634453008330 DNA-binding interface [nucleotide binding]; DNA binding site 634453008331 Winged helix-turn helix; Region: HTH_29; pfam13551 634453008332 Helix-turn-helix domain; Region: HTH_28; pfam13518 634453008333 Homeodomain-like domain; Region: HTH_32; pfam13565 634453008334 Integrase core domain; Region: rve; pfam00665 634453008335 Integrase core domain; Region: rve_3; cl15866 634453008336 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 634453008337 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 634453008338 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 634453008339 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634453008340 catalytic residues [active] 634453008341 catalytic nucleophile [active] 634453008342 Presynaptic Site I dimer interface [polypeptide binding]; other site 634453008343 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634453008344 Synaptic Flat tetramer interface [polypeptide binding]; other site 634453008345 Synaptic Site I dimer interface [polypeptide binding]; other site 634453008346 DNA binding site [nucleotide binding] 634453008347 ParA-like protein; Provisional; Region: PHA02518 634453008348 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 634453008349 P-loop; other site 634453008350 Magnesium ion binding site [ion binding]; other site 634453008351 Replication initiator protein A; Region: RPA; pfam10134 634453008352 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 634453008353 putative addiction module antidote; Region: doc_partner; TIGR02609 634453008354 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 634453008355 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 634453008356 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 634453008357 putative active site [active] 634453008358 Protein of unknown function (DUF3680); Region: DUF3680; pfam12441 634453008359 Conjugal transfer protein TraD; Region: TraD; pfam06412 634453008360 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 634453008361 MobA/MobL family; Region: MobA_MobL; pfam03389 634453008362 AAA domain; Region: AAA_30; pfam13604 634453008363 Family description; Region: UvrD_C_2; pfam13538 634453008364 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 634453008365 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 634453008366 oligomeric interface; other site 634453008367 putative active site [active] 634453008368 homodimer interface [polypeptide binding]; other site 634453008369 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 634453008370 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453008371 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 634453008372 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 634453008373 catalytic residues [active] 634453008374 catalytic nucleophile [active] 634453008375 AAA domain; Region: AAA_31; pfam13614 634453008376 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 634453008377 P-loop; other site 634453008378 Magnesium ion binding site [ion binding]; other site 634453008379 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 634453008380 non-specific DNA binding site [nucleotide binding]; other site 634453008381 salt bridge; other site 634453008382 sequence-specific DNA binding site [nucleotide binding]; other site 634453008383 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 634453008384 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 634453008385 HTH-like domain; Region: HTH_21; pfam13276 634453008386 Integrase core domain; Region: rve; pfam00665 634453008387 Integrase core domain; Region: rve_3; pfam13683 634453008388 Transposase; Region: HTH_Tnp_1; pfam01527 634453008389 T5orf172 domain; Region: T5orf172; pfam10544 634453008390 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 634453008391 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 634453008392 Pseudomurein-binding repeat; Region: PMBR; pfam09373 634453008393 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 634453008394 Methyltransferase domain; Region: Methyltransf_26; pfam13659 634453008395 Fic family protein [Function unknown]; Region: COG3177 634453008396 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 634453008397 Fic/DOC family; Region: Fic; pfam02661 634453008398 PemK-like protein; Region: PemK; pfam02452 634453008399 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 634453008400 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 634453008401 Presynaptic Site I dimer interface [polypeptide binding]; other site 634453008402 catalytic residues [active] 634453008403 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634453008404 Synaptic Flat tetramer interface [polypeptide binding]; other site 634453008405 Synaptic Site I dimer interface [polypeptide binding]; other site 634453008406 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 634453008407 DNA-binding interface [nucleotide binding]; DNA binding site 634453008408 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634453008409 Hint domain; Region: Hint_2; pfam13403 634453008410 Transposase; Region: HTH_Tnp_1; pfam01527 634453008411 HTH-like domain; Region: HTH_21; pfam13276 634453008412 Integrase core domain; Region: rve; pfam00665 634453008413 Integrase core domain; Region: rve_3; pfam13683 634453008414 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 634453008415 non-specific DNA binding site [nucleotide binding]; other site 634453008416 salt bridge; other site 634453008417 sequence-specific DNA binding site [nucleotide binding]; other site 634453008418 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 634453008419 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 634453008420 P-loop; other site 634453008421 Magnesium ion binding site [ion binding]; other site 634453008422 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 634453008423 Conjugal transfer protein TraD; Region: TraD; pfam06412 634453008424 MobA/MobL family; Region: MobA_MobL; pfam03389 634453008425 Helix-turn-helix domain; Region: HTH_36; pfam13730