-- dump date 20140618_183605 -- class Genbank::misc_feature -- table misc_feature_note -- id note 634452000001 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 634452000002 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 634452000003 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 634452000004 active site 634452000005 Int/Topo IB signature motif; other site 634452000006 hypothetical protein; Validated; Region: PRK00124 634452000007 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 634452000008 dimer interface [polypeptide binding]; other site 634452000009 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 634452000010 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 634452000011 putative substrate translocation pore; other site 634452000012 Uncharacterized conserved protein [Function unknown]; Region: COG2835 634452000013 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 634452000014 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 634452000015 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 634452000016 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 634452000017 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 634452000018 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 634452000019 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 634452000020 Creatinine amidohydrolase; Region: Creatininase; pfam02633 634452000021 Uncharacterized conserved protein [Function unknown]; Region: COG3391 634452000022 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 634452000023 AAA ATPase domain; Region: AAA_16; pfam13191 634452000024 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 634452000025 Uncharacterized conserved protein [Function unknown]; Region: COG3410 634452000026 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 634452000027 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 634452000028 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 634452000029 putative FMN binding site [chemical binding]; other site 634452000030 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 634452000031 Glycoprotease family; Region: Peptidase_M22; pfam00814 634452000032 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634452000033 Coenzyme A binding pocket [chemical binding]; other site 634452000034 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 634452000035 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 634452000036 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 634452000037 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 634452000038 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 634452000039 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 634452000040 generic binding surface II; other site 634452000041 generic binding surface I; other site 634452000042 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 634452000043 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634452000044 catalytic residue [active] 634452000045 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634452000046 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 634452000047 NAD(P) binding site [chemical binding]; other site 634452000048 catalytic residues [active] 634452000049 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 634452000050 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 634452000051 NAD binding site [chemical binding]; other site 634452000052 substrate binding site [chemical binding]; other site 634452000053 catalytic Zn binding site [ion binding]; other site 634452000054 tetramer interface [polypeptide binding]; other site 634452000055 structural Zn binding site [ion binding]; other site 634452000056 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 634452000057 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 634452000058 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 634452000059 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 634452000060 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 634452000061 ligand binding site [chemical binding]; other site 634452000062 homodimer interface [polypeptide binding]; other site 634452000063 NAD(P) binding site [chemical binding]; other site 634452000064 trimer interface B [polypeptide binding]; other site 634452000065 trimer interface A [polypeptide binding]; other site 634452000066 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 634452000067 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 634452000068 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 634452000069 Iron-sulfur protein interface; other site 634452000070 proximal quinone binding site [chemical binding]; other site 634452000071 SdhD (CybS) interface [polypeptide binding]; other site 634452000072 proximal heme binding site [chemical binding]; other site 634452000073 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 634452000074 putative SdhC subunit interface [polypeptide binding]; other site 634452000075 putative proximal heme binding site [chemical binding]; other site 634452000076 putative Iron-sulfur protein interface [polypeptide binding]; other site 634452000077 putative proximal quinone binding site; other site 634452000078 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 634452000079 L-aspartate oxidase; Provisional; Region: PRK06175 634452000080 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 634452000081 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 634452000082 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 634452000083 Putative phosphatase (DUF442); Region: DUF442; cl17385 634452000084 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 634452000085 EamA-like transporter family; Region: EamA; pfam00892 634452000086 Phosphoglycerate kinase; Region: PGK; pfam00162 634452000087 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 634452000088 substrate binding site [chemical binding]; other site 634452000089 hinge regions; other site 634452000090 ADP binding site [chemical binding]; other site 634452000091 catalytic site [active] 634452000092 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 634452000093 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 634452000094 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 634452000095 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 634452000096 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 634452000097 TPP-binding site [chemical binding]; other site 634452000098 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 634452000099 PYR/PP interface [polypeptide binding]; other site 634452000100 dimer interface [polypeptide binding]; other site 634452000101 TPP binding site [chemical binding]; other site 634452000102 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634452000103 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 634452000104 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 634452000105 substrate-cofactor binding pocket; other site 634452000106 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452000107 catalytic residue [active] 634452000108 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 634452000109 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 634452000110 catalytic residues [active] 634452000111 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 634452000112 recombinase A; Provisional; Region: recA; PRK09354 634452000113 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 634452000114 hexamer interface [polypeptide binding]; other site 634452000115 Walker A motif; other site 634452000116 ATP binding site [chemical binding]; other site 634452000117 Walker B motif; other site 634452000118 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 634452000119 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634452000120 Coenzyme A binding pocket [chemical binding]; other site 634452000121 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 634452000122 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 634452000123 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 634452000124 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 634452000125 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 634452000126 Ligand binding site; other site 634452000127 DXD motif; other site 634452000128 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 634452000129 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 634452000130 active site 634452000131 dimer interface [polypeptide binding]; other site 634452000132 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 634452000133 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 634452000134 putative substrate translocation pore; other site 634452000135 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 634452000136 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 634452000137 Walker A motif; other site 634452000138 ATP binding site [chemical binding]; other site 634452000139 Walker B motif; other site 634452000140 arginine finger; other site 634452000141 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 634452000142 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 634452000143 hypothetical protein; Validated; Region: PRK00153 634452000144 recombination protein RecR; Reviewed; Region: recR; PRK00076 634452000145 RecR protein; Region: RecR; pfam02132 634452000146 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 634452000147 putative active site [active] 634452000148 putative metal-binding site [ion binding]; other site 634452000149 tetramer interface [polypeptide binding]; other site 634452000150 short chain dehydrogenase; Provisional; Region: PRK09134 634452000151 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634452000152 NAD(P) binding site [chemical binding]; other site 634452000153 active site 634452000154 Dihydroneopterin aldolase; Region: FolB; pfam02152 634452000155 active site 634452000156 TIGR02300 family protein; Region: FYDLN_acid 634452000157 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 634452000158 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 634452000159 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 634452000160 hinge; other site 634452000161 active site 634452000162 cytidylate kinase; Provisional; Region: cmk; PRK00023 634452000163 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 634452000164 CMP-binding site; other site 634452000165 The sites determining sugar specificity; other site 634452000166 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 634452000167 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 634452000168 RNA binding site [nucleotide binding]; other site 634452000169 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 634452000170 RNA binding site [nucleotide binding]; other site 634452000171 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 634452000172 RNA binding site [nucleotide binding]; other site 634452000173 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 634452000174 RNA binding site [nucleotide binding]; other site 634452000175 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 634452000176 RNA binding site [nucleotide binding]; other site 634452000177 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 634452000178 RNA binding site [nucleotide binding]; other site 634452000179 Major royal jelly protein; Region: MRJP; pfam03022 634452000180 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 634452000181 active site 634452000182 dimerization interface [polypeptide binding]; other site 634452000183 ribonuclease PH; Reviewed; Region: rph; PRK00173 634452000184 Ribonuclease PH; Region: RNase_PH_bact; cd11362 634452000185 hexamer interface [polypeptide binding]; other site 634452000186 active site 634452000187 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 634452000188 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 634452000189 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 634452000190 Transglycosylase; Region: Transgly; pfam00912 634452000191 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 634452000192 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 634452000193 This domain is found in peptide chain release factors; Region: PCRF; smart00937 634452000194 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 634452000195 RF-1 domain; Region: RF-1; pfam00472 634452000196 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634452000197 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 634452000198 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634452000199 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 634452000200 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634452000201 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 634452000202 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 634452000203 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 634452000204 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 634452000205 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 634452000206 rod shape-determining protein MreC; Provisional; Region: PRK13922 634452000207 rod shape-determining protein MreC; Region: MreC; pfam04085 634452000208 rod shape-determining protein MreB; Provisional; Region: PRK13927 634452000209 MreB and similar proteins; Region: MreB_like; cd10225 634452000210 nucleotide binding site [chemical binding]; other site 634452000211 Mg binding site [ion binding]; other site 634452000212 putative protofilament interaction site [polypeptide binding]; other site 634452000213 RodZ interaction site [polypeptide binding]; other site 634452000214 2-isopropylmalate synthase; Validated; Region: PRK00915 634452000215 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 634452000216 active site 634452000217 catalytic residues [active] 634452000218 metal binding site [ion binding]; metal-binding site 634452000219 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 634452000220 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 634452000221 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 634452000222 Uncharacterized conserved protein [Function unknown]; Region: COG0398 634452000223 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 634452000224 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 634452000225 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 634452000226 putative substrate translocation pore; other site 634452000227 PAS fold; Region: PAS_7; pfam12860 634452000228 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634452000229 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 634452000230 dimer interface [polypeptide binding]; other site 634452000231 phosphorylation site [posttranslational modification] 634452000232 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 634452000233 ATP binding site [chemical binding]; other site 634452000234 Mg2+ binding site [ion binding]; other site 634452000235 G-X-G motif; other site 634452000236 Response regulator receiver domain; Region: Response_reg; pfam00072 634452000237 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 634452000238 active site 634452000239 phosphorylation site [posttranslational modification] 634452000240 intermolecular recognition site; other site 634452000241 dimerization interface [polypeptide binding]; other site 634452000242 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634452000243 active site 634452000244 Fusaric acid resistance protein family; Region: FUSC; pfam04632 634452000245 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634452000246 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 634452000247 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 634452000248 MOFRL family; Region: MOFRL; pfam05161 634452000249 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 634452000250 ligand binding site [chemical binding]; other site 634452000251 active site 634452000252 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634452000253 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634452000254 Cytochrome c; Region: Cytochrom_C; pfam00034 634452000255 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 634452000256 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 634452000257 Trp docking motif [polypeptide binding]; other site 634452000258 cytochrome domain interface [polypeptide binding]; other site 634452000259 active site 634452000260 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634452000261 Cytochrome c; Region: Cytochrom_C; pfam00034 634452000262 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 634452000263 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 634452000264 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 634452000265 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 634452000266 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 634452000267 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 634452000268 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 634452000269 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 634452000270 D-pathway; other site 634452000271 Putative ubiquinol binding site [chemical binding]; other site 634452000272 Low-spin heme (heme b) binding site [chemical binding]; other site 634452000273 Putative water exit pathway; other site 634452000274 Binuclear center (heme o3/CuB) [ion binding]; other site 634452000275 K-pathway; other site 634452000276 Putative proton exit pathway; other site 634452000277 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 634452000278 Subunit I/III interface [polypeptide binding]; other site 634452000279 Subunit III/IV interface [polypeptide binding]; other site 634452000280 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 634452000281 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 634452000282 4Fe-4S binding domain; Region: Fer4; pfam00037 634452000283 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 634452000284 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 634452000285 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 634452000286 nucleotide binding region [chemical binding]; other site 634452000287 ATP-binding site [chemical binding]; other site 634452000288 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 634452000289 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 634452000290 interface (dimer of trimers) [polypeptide binding]; other site 634452000291 Substrate-binding/catalytic site; other site 634452000292 Zn-binding sites [ion binding]; other site 634452000293 MarR family; Region: MarR; pfam01047 634452000294 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 634452000295 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 634452000296 Mg++ binding site [ion binding]; other site 634452000297 putative catalytic motif [active] 634452000298 putative substrate binding site [chemical binding]; other site 634452000299 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 634452000300 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 634452000301 NAD(P) binding site [chemical binding]; other site 634452000302 homodimer interface [polypeptide binding]; other site 634452000303 substrate binding site [chemical binding]; other site 634452000304 active site 634452000305 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 634452000306 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 634452000307 inhibitor-cofactor binding pocket; inhibition site 634452000308 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452000309 catalytic residue [active] 634452000310 dihydroorotase; Validated; Region: PRK09060 634452000311 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 634452000312 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 634452000313 active site 634452000314 glutathione reductase; Validated; Region: PRK06116 634452000315 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634452000316 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634452000317 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 634452000318 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 634452000319 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 634452000320 FAD binding pocket [chemical binding]; other site 634452000321 FAD binding motif [chemical binding]; other site 634452000322 phosphate binding motif [ion binding]; other site 634452000323 beta-alpha-beta structure motif; other site 634452000324 NAD binding pocket [chemical binding]; other site 634452000325 DEAD-like helicases superfamily; Region: DEXDc; smart00487 634452000326 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 634452000327 ATP binding site [chemical binding]; other site 634452000328 putative Mg++ binding site [ion binding]; other site 634452000329 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 634452000330 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 634452000331 nucleotide binding region [chemical binding]; other site 634452000332 ATP-binding site [chemical binding]; other site 634452000333 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 634452000334 short chain dehydrogenase; Provisional; Region: PRK06197 634452000335 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634452000336 NAD(P) binding site [chemical binding]; other site 634452000337 active site 634452000338 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 634452000339 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 634452000340 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 634452000341 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 634452000342 malate dehydrogenase; Provisional; Region: PRK13529 634452000343 Malic enzyme, N-terminal domain; Region: malic; pfam00390 634452000344 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 634452000345 NAD(P) binding site [chemical binding]; other site 634452000346 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 634452000347 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 634452000348 putative homodimer interface [polypeptide binding]; other site 634452000349 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 634452000350 heterodimer interface [polypeptide binding]; other site 634452000351 homodimer interface [polypeptide binding]; other site 634452000352 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 634452000353 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; COG0712 634452000354 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 634452000355 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 634452000356 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 634452000357 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 634452000358 beta subunit interaction interface [polypeptide binding]; other site 634452000359 Walker A motif; other site 634452000360 ATP binding site [chemical binding]; other site 634452000361 Walker B motif; other site 634452000362 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 634452000363 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 634452000364 core domain interface [polypeptide binding]; other site 634452000365 delta subunit interface [polypeptide binding]; other site 634452000366 epsilon subunit interface [polypeptide binding]; other site 634452000367 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 634452000368 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 634452000369 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 634452000370 alpha subunit interaction interface [polypeptide binding]; other site 634452000371 Walker A motif; other site 634452000372 ATP binding site [chemical binding]; other site 634452000373 Walker B motif; other site 634452000374 inhibitor binding site; inhibition site 634452000375 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 634452000376 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 634452000377 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 634452000378 gamma subunit interface [polypeptide binding]; other site 634452000379 epsilon subunit interface [polypeptide binding]; other site 634452000380 LBP interface [polypeptide binding]; other site 634452000381 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 634452000382 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 634452000383 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 634452000384 catalytic site [active] 634452000385 putative active site [active] 634452000386 putative substrate binding site [chemical binding]; other site 634452000387 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 634452000388 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 634452000389 substrate binding site [chemical binding]; other site 634452000390 ATP binding site [chemical binding]; other site 634452000391 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 634452000392 GcrA cell cycle regulator; Region: GcrA; cl11564 634452000393 GcrA cell cycle regulator; Region: GcrA; cl11564 634452000394 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 634452000395 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 634452000396 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452000397 Walker A/P-loop; other site 634452000398 ATP binding site [chemical binding]; other site 634452000399 Q-loop/lid; other site 634452000400 ABC transporter signature motif; other site 634452000401 Walker B; other site 634452000402 D-loop; other site 634452000403 H-loop/switch region; other site 634452000404 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 634452000405 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 634452000406 dimer interface [polypeptide binding]; other site 634452000407 conserved gate region; other site 634452000408 putative PBP binding loops; other site 634452000409 ABC-ATPase subunit interface; other site 634452000410 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 634452000411 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 634452000412 dimer interface [polypeptide binding]; other site 634452000413 conserved gate region; other site 634452000414 putative PBP binding loops; other site 634452000415 ABC-ATPase subunit interface; other site 634452000416 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452000417 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 634452000418 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 634452000419 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 634452000420 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 634452000421 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 634452000422 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634452000423 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 634452000424 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 634452000425 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 634452000426 ethanolamine permease; Region: 2A0305; TIGR00908 634452000427 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 634452000428 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634452000429 HlyD family secretion protein; Region: HlyD_3; pfam13437 634452000430 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 634452000431 Protein export membrane protein; Region: SecD_SecF; cl14618 634452000432 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 634452000433 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 634452000434 DNA-binding site [nucleotide binding]; DNA binding site 634452000435 RNA-binding motif; other site 634452000436 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452000437 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452000438 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634452000439 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 634452000440 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 634452000441 N-terminal plug; other site 634452000442 ligand-binding site [chemical binding]; other site 634452000443 hypothetical protein; Provisional; Region: PRK09945 634452000444 Hint domain; Region: Hint_2; pfam13403 634452000445 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 634452000446 formamidase; Provisional; Region: amiF; PRK13287 634452000447 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 634452000448 multimer interface [polypeptide binding]; other site 634452000449 active site 634452000450 catalytic triad [active] 634452000451 dimer interface [polypeptide binding]; other site 634452000452 Response regulator receiver domain; Region: Response_reg; pfam00072 634452000453 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 634452000454 active site 634452000455 phosphorylation site [posttranslational modification] 634452000456 intermolecular recognition site; other site 634452000457 dimerization interface [polypeptide binding]; other site 634452000458 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 634452000459 DNA binding residues [nucleotide binding] 634452000460 dimerization interface [polypeptide binding]; other site 634452000461 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 634452000462 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634452000463 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 634452000464 dimer interface [polypeptide binding]; other site 634452000465 phosphorylation site [posttranslational modification] 634452000466 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 634452000467 ATP binding site [chemical binding]; other site 634452000468 Mg2+ binding site [ion binding]; other site 634452000469 G-X-G motif; other site 634452000470 Response regulator receiver domain; Region: Response_reg; pfam00072 634452000471 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 634452000472 active site 634452000473 phosphorylation site [posttranslational modification] 634452000474 intermolecular recognition site; other site 634452000475 dimerization interface [polypeptide binding]; other site 634452000476 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 634452000477 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 634452000478 putative ligand binding site [chemical binding]; other site 634452000479 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 634452000480 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 634452000481 TM-ABC transporter signature motif; other site 634452000482 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 634452000483 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 634452000484 TM-ABC transporter signature motif; other site 634452000485 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 634452000486 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 634452000487 Walker A/P-loop; other site 634452000488 ATP binding site [chemical binding]; other site 634452000489 Q-loop/lid; other site 634452000490 ABC transporter signature motif; other site 634452000491 Walker B; other site 634452000492 D-loop; other site 634452000493 H-loop/switch region; other site 634452000494 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 634452000495 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 634452000496 Walker A/P-loop; other site 634452000497 ATP binding site [chemical binding]; other site 634452000498 Q-loop/lid; other site 634452000499 ABC transporter signature motif; other site 634452000500 Walker B; other site 634452000501 D-loop; other site 634452000502 H-loop/switch region; other site 634452000503 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 634452000504 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 634452000505 Predicted transcriptional regulator [Transcription]; Region: COG2378 634452000506 WYL domain; Region: WYL; pfam13280 634452000507 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 634452000508 active site 634452000509 Int/Topo IB signature motif; other site 634452000510 DNA binding site [nucleotide binding] 634452000511 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452000512 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 634452000513 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452000514 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 634452000515 active site 634452000516 Catalytic domain of Protein Kinases; Region: PKc; cd00180 634452000517 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 634452000518 active site 634452000519 ATP binding site [chemical binding]; other site 634452000520 substrate binding site [chemical binding]; other site 634452000521 activation loop (A-loop); other site 634452000522 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 634452000523 Catalytic domain of Protein Kinases; Region: PKc; cd00180 634452000524 active site 634452000525 ATP binding site [chemical binding]; other site 634452000526 substrate binding site [chemical binding]; other site 634452000527 activation loop (A-loop); other site 634452000528 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 634452000529 active site 634452000530 Int/Topo IB signature motif; other site 634452000531 DNA binding site [nucleotide binding] 634452000532 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 634452000533 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634452000534 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 634452000535 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 634452000536 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 634452000537 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 634452000538 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634452000539 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634452000540 Transposase; Region: HTH_Tnp_1; pfam01527 634452000541 Protein of unknown function DUF45; Region: DUF45; pfam01863 634452000542 hypothetical protein; Provisional; Region: PRK05170 634452000543 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 634452000544 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 634452000545 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452000546 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 634452000547 Walker A/P-loop; other site 634452000548 ATP binding site [chemical binding]; other site 634452000549 Q-loop/lid; other site 634452000550 ABC transporter signature motif; other site 634452000551 Walker B; other site 634452000552 D-loop; other site 634452000553 H-loop/switch region; other site 634452000554 TOBE domain; Region: TOBE_2; pfam08402 634452000555 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 634452000556 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 634452000557 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 634452000558 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 634452000559 multidrug resistance protein MdtN; Provisional; Region: PRK10476 634452000560 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634452000561 HlyD family secretion protein; Region: HlyD_3; pfam13437 634452000562 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 634452000563 hopanoid-associated phosphorylase; Region: HpnG; TIGR03468 634452000564 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 634452000565 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 634452000566 Active site cavity [active] 634452000567 catalytic acid [active] 634452000568 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 634452000569 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 634452000570 active site lid residues [active] 634452000571 substrate binding pocket [chemical binding]; other site 634452000572 catalytic residues [active] 634452000573 substrate-Mg2+ binding site; other site 634452000574 aspartate-rich region 1; other site 634452000575 aspartate-rich region 2; other site 634452000576 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 634452000577 active site lid residues [active] 634452000578 substrate binding pocket [chemical binding]; other site 634452000579 catalytic residues [active] 634452000580 substrate-Mg2+ binding site; other site 634452000581 aspartate-rich region 1; other site 634452000582 aspartate-rich region 2; other site 634452000583 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 634452000584 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 634452000585 active site 634452000586 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 634452000587 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 634452000588 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 634452000589 putative NADP binding site [chemical binding]; other site 634452000590 putative substrate binding site [chemical binding]; other site 634452000591 active site 634452000592 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 634452000593 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 634452000594 prephenate dehydrogenase; Validated; Region: PRK08507 634452000595 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 634452000596 TPR motif; other site 634452000597 TPR repeat; Region: TPR_11; pfam13414 634452000598 binding surface 634452000599 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634452000600 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452000601 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 634452000602 dimerization interface [polypeptide binding]; other site 634452000603 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 634452000604 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 634452000605 dimer interface [polypeptide binding]; other site 634452000606 decamer (pentamer of dimers) interface [polypeptide binding]; other site 634452000607 catalytic triad [active] 634452000608 peroxidatic and resolving cysteines [active] 634452000609 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 634452000610 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 634452000611 Uncharacterized conserved protein [Function unknown]; Region: COG2353 634452000612 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 634452000613 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 634452000614 putative active site [active] 634452000615 metal binding site [ion binding]; metal-binding site 634452000616 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 634452000617 dimer interface [polypeptide binding]; other site 634452000618 substrate binding site [chemical binding]; other site 634452000619 metal binding sites [ion binding]; metal-binding site 634452000620 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 634452000621 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452000622 Walker A/P-loop; other site 634452000623 ATP binding site [chemical binding]; other site 634452000624 Q-loop/lid; other site 634452000625 ABC transporter signature motif; other site 634452000626 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634452000627 ABC transporter; Region: ABC_tran_2; pfam12848 634452000628 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634452000629 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 634452000630 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 634452000631 Coenzyme A binding pocket [chemical binding]; other site 634452000632 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 634452000633 VacJ like lipoprotein; Region: VacJ; cl01073 634452000634 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 634452000635 putative metal binding site [ion binding]; other site 634452000636 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 634452000637 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 634452000638 HSP70 interaction site [polypeptide binding]; other site 634452000639 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 634452000640 epoxyqueuosine reductase; Region: TIGR00276 634452000641 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 634452000642 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 634452000643 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 634452000644 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 634452000645 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 634452000646 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 634452000647 substrate binding site [chemical binding]; other site 634452000648 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 634452000649 FAD binding site [chemical binding]; other site 634452000650 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 634452000651 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 634452000652 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 634452000653 homodimer interface [polypeptide binding]; other site 634452000654 NADP binding site [chemical binding]; other site 634452000655 substrate binding site [chemical binding]; other site 634452000656 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 634452000657 Protein of unknown function, DUF482; Region: DUF482; pfam04339 634452000658 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 634452000659 homotrimer interaction site [polypeptide binding]; other site 634452000660 putative active site [active] 634452000661 TSCPD domain; Region: TSCPD; pfam12637 634452000662 NADH dehydrogenase; Validated; Region: PRK08183 634452000663 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 634452000664 mce related protein; Region: MCE; pfam02470 634452000665 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 634452000666 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 634452000667 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 634452000668 active site 634452000669 motif I; other site 634452000670 motif II; other site 634452000671 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 634452000672 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 634452000673 active site 634452000674 homotetramer interface [polypeptide binding]; other site 634452000675 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 634452000676 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 634452000677 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 634452000678 Probable Catalytic site; other site 634452000679 metal-binding site 634452000680 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634452000681 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 634452000682 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 634452000683 nudix motif; other site 634452000684 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 634452000685 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 634452000686 active site 634452000687 catalytic tetrad [active] 634452000688 Helix-turn-helix domain; Region: HTH_17; pfam12728 634452000689 excinuclease ABC subunit B; Provisional; Region: PRK05298 634452000690 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 634452000691 ATP binding site [chemical binding]; other site 634452000692 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 634452000693 nucleotide binding region [chemical binding]; other site 634452000694 ATP-binding site [chemical binding]; other site 634452000695 Ultra-violet resistance protein B; Region: UvrB; pfam12344 634452000696 UvrB/uvrC motif; Region: UVR; pfam02151 634452000697 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 634452000698 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 634452000699 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 634452000700 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 634452000701 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 634452000702 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 634452000703 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 634452000704 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 634452000705 active site 634452000706 motif I; other site 634452000707 motif II; other site 634452000708 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 634452000709 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 634452000710 active site 634452000711 L-asparagine permease; Provisional; Region: PRK15049 634452000712 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 634452000713 active site 634452000714 DNA polymerase IV; Validated; Region: PRK02406 634452000715 DNA binding site [nucleotide binding] 634452000716 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 634452000717 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 634452000718 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 634452000719 quinone interaction residues [chemical binding]; other site 634452000720 active site 634452000721 catalytic residues [active] 634452000722 FMN binding site [chemical binding]; other site 634452000723 substrate binding site [chemical binding]; other site 634452000724 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 634452000725 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 634452000726 active site 634452000727 motif I; other site 634452000728 motif II; other site 634452000729 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 634452000730 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 634452000731 nudix motif; other site 634452000732 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 634452000733 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 634452000734 putative active site [active] 634452000735 metal binding site [ion binding]; metal-binding site 634452000736 homodimer binding site [polypeptide binding]; other site 634452000737 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 634452000738 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 634452000739 Cell division protein ZapA; Region: ZapA; cl01146 634452000740 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 634452000741 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 634452000742 putative active site; other site 634452000743 catalytic residue [active] 634452000744 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 634452000745 thiamine phosphate binding site [chemical binding]; other site 634452000746 active site 634452000747 pyrophosphate binding site [ion binding]; other site 634452000748 Prophage antirepressor [Transcription]; Region: COG3617 634452000749 BRO family, N-terminal domain; Region: Bro-N; smart01040 634452000750 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 634452000751 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 634452000752 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 634452000753 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452000754 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 634452000755 Transposase; Region: DDE_Tnp_ISL3; pfam01610 634452000756 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452000757 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452000758 Transposase; Region: DDE_Tnp_ISL3; pfam01610 634452000759 Protein of unknown function (DUF2501); Region: DUF2501; cl08197 634452000760 Fasciclin domain; Region: Fasciclin; cl02663 634452000761 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 634452000762 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 634452000763 motif 1; other site 634452000764 dimer interface [polypeptide binding]; other site 634452000765 active site 634452000766 motif 2; other site 634452000767 motif 3; other site 634452000768 Radical SAM superfamily; Region: Radical_SAM; pfam04055 634452000769 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 634452000770 FeS/SAM binding site; other site 634452000771 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 634452000772 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 634452000773 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 634452000774 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 634452000775 active site 634452000776 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 634452000777 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 634452000778 Uncharacterized conserved protein [Function unknown]; Region: COG2127 634452000779 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 634452000780 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 634452000781 Walker A motif; other site 634452000782 ATP binding site [chemical binding]; other site 634452000783 Walker B motif; other site 634452000784 arginine finger; other site 634452000785 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 634452000786 Walker A motif; other site 634452000787 ATP binding site [chemical binding]; other site 634452000788 Walker B motif; other site 634452000789 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 634452000790 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 634452000791 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 634452000792 Putative transcriptional regulator [Transcription]; Region: COG1678 634452000793 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 634452000794 Shikimate kinase; Region: SKI; pfam01202 634452000795 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 634452000796 homotrimer interaction site [polypeptide binding]; other site 634452000797 putative active site [active] 634452000798 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 634452000799 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 634452000800 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634452000801 HAMP domain; Region: HAMP; pfam00672 634452000802 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 634452000803 dimer interface [polypeptide binding]; other site 634452000804 phosphorylation site [posttranslational modification] 634452000805 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 634452000806 ATP binding site [chemical binding]; other site 634452000807 Mg2+ binding site [ion binding]; other site 634452000808 G-X-G motif; other site 634452000809 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634452000810 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 634452000811 active site 634452000812 phosphorylation site [posttranslational modification] 634452000813 intermolecular recognition site; other site 634452000814 dimerization interface [polypeptide binding]; other site 634452000815 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 634452000816 DNA binding site [nucleotide binding] 634452000817 GrpE; Region: GrpE; pfam01025 634452000818 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 634452000819 dimer interface [polypeptide binding]; other site 634452000820 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 634452000821 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 634452000822 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 634452000823 nucleotide binding site [chemical binding]; other site 634452000824 NEF interaction site [polypeptide binding]; other site 634452000825 SBD interface [polypeptide binding]; other site 634452000826 chaperone protein DnaJ; Provisional; Region: PRK10767 634452000827 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 634452000828 HSP70 interaction site [polypeptide binding]; other site 634452000829 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 634452000830 Zn binding sites [ion binding]; other site 634452000831 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 634452000832 dimer interface [polypeptide binding]; other site 634452000833 dihydrodipicolinate reductase; Provisional; Region: PRK00048 634452000834 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 634452000835 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 634452000836 S-adenosylmethionine synthetase; Validated; Region: PRK05250 634452000837 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 634452000838 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 634452000839 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 634452000840 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 634452000841 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 634452000842 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 634452000843 purine monophosphate binding site [chemical binding]; other site 634452000844 dimer interface [polypeptide binding]; other site 634452000845 putative catalytic residues [active] 634452000846 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 634452000847 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 634452000848 EamA-like transporter family; Region: EamA; pfam00892 634452000849 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 634452000850 DALR anticodon binding domain; Region: DALR_1; pfam05746 634452000851 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 634452000852 dimer interface [polypeptide binding]; other site 634452000853 motif 1; other site 634452000854 active site 634452000855 motif 2; other site 634452000856 motif 3; other site 634452000857 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 634452000858 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 634452000859 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 634452000860 non-specific DNA binding site [nucleotide binding]; other site 634452000861 salt bridge; other site 634452000862 sequence-specific DNA binding site [nucleotide binding]; other site 634452000863 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 634452000864 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 634452000865 putative active site [active] 634452000866 catalytic triad [active] 634452000867 putative dimer interface [polypeptide binding]; other site 634452000868 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 634452000869 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 634452000870 metal binding site 2 [ion binding]; metal-binding site 634452000871 putative DNA binding helix; other site 634452000872 metal binding site 1 [ion binding]; metal-binding site 634452000873 dimer interface [polypeptide binding]; other site 634452000874 structural Zn2+ binding site [ion binding]; other site 634452000875 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 634452000876 CPxP motif; other site 634452000877 transcription termination factor Rho; Provisional; Region: rho; PRK09376 634452000878 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 634452000879 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 634452000880 RNA binding site [nucleotide binding]; other site 634452000881 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 634452000882 multimer interface [polypeptide binding]; other site 634452000883 Walker A motif; other site 634452000884 ATP binding site [chemical binding]; other site 634452000885 Walker B motif; other site 634452000886 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 634452000887 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 634452000888 oligomer interface [polypeptide binding]; other site 634452000889 Cl binding site [ion binding]; other site 634452000890 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 634452000891 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 634452000892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452000893 catalytic residue [active] 634452000894 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 634452000895 substrate binding site [chemical binding]; other site 634452000896 active site 634452000897 catalytic residues [active] 634452000898 heterodimer interface [polypeptide binding]; other site 634452000899 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 634452000900 HerA helicase [Replication, recombination, and repair]; Region: COG0433 634452000901 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 634452000902 Walker A motif; other site 634452000903 ATP binding site [chemical binding]; other site 634452000904 Walker B motif; other site 634452000905 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 634452000906 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 634452000907 dimer interface [polypeptide binding]; other site 634452000908 motif 1; other site 634452000909 active site 634452000910 motif 2; other site 634452000911 motif 3; other site 634452000912 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 634452000913 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 634452000914 GDP-binding site [chemical binding]; other site 634452000915 ACT binding site; other site 634452000916 IMP binding site; other site 634452000917 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 634452000918 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 634452000919 active site 634452000920 phosphorylation site [posttranslational modification] 634452000921 intermolecular recognition site; other site 634452000922 dimerization interface [polypeptide binding]; other site 634452000923 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 634452000924 DNA binding site [nucleotide binding] 634452000925 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 634452000926 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 634452000927 dimer interface [polypeptide binding]; other site 634452000928 phosphorylation site [posttranslational modification] 634452000929 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 634452000930 ATP binding site [chemical binding]; other site 634452000931 Mg2+ binding site [ion binding]; other site 634452000932 G-X-G motif; other site 634452000933 PBP superfamily domain; Region: PBP_like_2; cl17296 634452000934 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 634452000935 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 634452000936 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 634452000937 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 634452000938 catalytic core [active] 634452000939 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 634452000940 Domain of unknown function DUF21; Region: DUF21; pfam01595 634452000941 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 634452000942 Transporter associated domain; Region: CorC_HlyC; smart01091 634452000943 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 634452000944 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 634452000945 NADP binding site [chemical binding]; other site 634452000946 dimer interface [polypeptide binding]; other site 634452000947 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 634452000948 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 634452000949 putative active site [active] 634452000950 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634452000951 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 634452000952 Walker A/P-loop; other site 634452000953 ATP binding site [chemical binding]; other site 634452000954 Q-loop/lid; other site 634452000955 ABC transporter signature motif; other site 634452000956 Walker B; other site 634452000957 D-loop; other site 634452000958 H-loop/switch region; other site 634452000959 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 634452000960 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634452000961 HlyD family secretion protein; Region: HlyD_3; pfam13437 634452000962 Hint domain; Region: Hint_2; pfam13403 634452000963 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 634452000964 classical (c) SDRs; Region: SDR_c; cd05233 634452000965 NAD(P) binding site [chemical binding]; other site 634452000966 active site 634452000967 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 634452000968 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 634452000969 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 634452000970 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 634452000971 homodimer interface [polypeptide binding]; other site 634452000972 metal binding site [ion binding]; metal-binding site 634452000973 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 634452000974 homodimer interface [polypeptide binding]; other site 634452000975 active site 634452000976 putative chemical substrate binding site [chemical binding]; other site 634452000977 metal binding site [ion binding]; metal-binding site 634452000978 Protein of unknown function (DUF2501); Region: DUF2501; cl08197 634452000979 heat shock protein 90; Provisional; Region: PRK05218 634452000980 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 634452000981 ATP binding site [chemical binding]; other site 634452000982 Mg2+ binding site [ion binding]; other site 634452000983 G-X-G motif; other site 634452000984 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 634452000985 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 634452000986 DNA binding site [nucleotide binding] 634452000987 active site 634452000988 Int/Topo IB signature motif; other site 634452000989 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 634452000990 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452000991 CotH protein; Region: CotH; pfam08757 634452000992 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 634452000993 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 634452000994 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 634452000995 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 634452000996 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 634452000997 active site 634452000998 substrate binding site [chemical binding]; other site 634452000999 Mg2+ binding site [ion binding]; other site 634452001000 hypothetical protein; Provisional; Region: PRK09272 634452001001 hypothetical protein; Provisional; Region: PRK10316 634452001002 YfdX protein; Region: YfdX; pfam10938 634452001003 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 634452001004 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 634452001005 sequence-specific DNA binding site [nucleotide binding]; other site 634452001006 salt bridge; other site 634452001007 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 634452001008 Domain of unknown function (DUF955); Region: DUF955; pfam06114 634452001009 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 634452001010 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 634452001011 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 634452001012 methylcitrate synthase; Provisional; Region: PRK12351 634452001013 oxalacetate binding site [chemical binding]; other site 634452001014 citrylCoA binding site [chemical binding]; other site 634452001015 coenzyme A binding site [chemical binding]; other site 634452001016 catalytic triad [active] 634452001017 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 634452001018 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 634452001019 tetramer interface [polypeptide binding]; other site 634452001020 active site 634452001021 Mg2+/Mn2+ binding site [ion binding]; other site 634452001022 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 634452001023 acetyl-CoA synthetase; Provisional; Region: PRK00174 634452001024 acyl-activating enzyme (AAE) consensus motif; other site 634452001025 AMP binding site [chemical binding]; other site 634452001026 active site 634452001027 CoA binding site [chemical binding]; other site 634452001028 putative sialic acid transporter; Region: 2A0112; TIGR00891 634452001029 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 634452001030 putative substrate translocation pore; other site 634452001031 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 634452001032 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 634452001033 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 634452001034 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 634452001035 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 634452001036 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 634452001037 dimer interface [polypeptide binding]; other site 634452001038 anticodon binding site; other site 634452001039 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 634452001040 homodimer interface [polypeptide binding]; other site 634452001041 motif 1; other site 634452001042 active site 634452001043 motif 2; other site 634452001044 GAD domain; Region: GAD; pfam02938 634452001045 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 634452001046 active site 634452001047 motif 3; other site 634452001048 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 634452001049 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 634452001050 tetramer interface [polypeptide binding]; other site 634452001051 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452001052 catalytic residue [active] 634452001053 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 634452001054 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 634452001055 5S rRNA interface [nucleotide binding]; other site 634452001056 CTC domain interface [polypeptide binding]; other site 634452001057 L16 interface [polypeptide binding]; other site 634452001058 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 634452001059 putative active site [active] 634452001060 catalytic residue [active] 634452001061 GTP-binding protein YchF; Reviewed; Region: PRK09601 634452001062 YchF GTPase; Region: YchF; cd01900 634452001063 G1 box; other site 634452001064 GTP/Mg2+ binding site [chemical binding]; other site 634452001065 Switch I region; other site 634452001066 G2 box; other site 634452001067 Switch II region; other site 634452001068 G3 box; other site 634452001069 G4 box; other site 634452001070 G5 box; other site 634452001071 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 634452001072 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 634452001073 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 634452001074 putative catalytic cysteine [active] 634452001075 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 634452001076 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 634452001077 active site 634452001078 (T/H)XGH motif; other site 634452001079 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 634452001080 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 634452001081 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 634452001082 Rhodanese-like domain; Region: Rhodanese; pfam00581 634452001083 active site residue [active] 634452001084 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 634452001085 active site residue [active] 634452001086 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634452001087 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452001088 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 634452001089 putative dimerization interface [polypeptide binding]; other site 634452001090 putative substrate binding pocket [chemical binding]; other site 634452001091 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 634452001092 acetolactate synthase; Reviewed; Region: PRK08617 634452001093 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 634452001094 PYR/PP interface [polypeptide binding]; other site 634452001095 dimer interface [polypeptide binding]; other site 634452001096 TPP binding site [chemical binding]; other site 634452001097 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634452001098 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 634452001099 TPP-binding site [chemical binding]; other site 634452001100 benzoylformate decarboxylase; Reviewed; Region: PRK07092 634452001101 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 634452001102 PYR/PP interface [polypeptide binding]; other site 634452001103 dimer interface [polypeptide binding]; other site 634452001104 TPP binding site [chemical binding]; other site 634452001105 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634452001106 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 634452001107 TPP-binding site [chemical binding]; other site 634452001108 dimer interface [polypeptide binding]; other site 634452001109 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 634452001110 Cysteine-rich domain; Region: CCG; pfam02754 634452001111 Cysteine-rich domain; Region: CCG; pfam02754 634452001112 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 634452001113 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 634452001114 4Fe-4S binding domain; Region: Fer4; pfam00037 634452001115 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 634452001116 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 634452001117 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 634452001118 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 634452001119 hinge; other site 634452001120 active site 634452001121 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 634452001122 trimer interface [polypeptide binding]; other site 634452001123 active site 634452001124 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634452001125 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 634452001126 putative active site [active] 634452001127 YdjC motif; other site 634452001128 Mg binding site [ion binding]; other site 634452001129 putative homodimer interface [polypeptide binding]; other site 634452001130 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 634452001131 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 634452001132 B12 binding site [chemical binding]; other site 634452001133 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 634452001134 FeS/SAM binding site; other site 634452001135 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 634452001136 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 634452001137 ligand binding site; other site 634452001138 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 634452001139 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 634452001140 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 634452001141 TPP-binding site; other site 634452001142 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 634452001143 PYR/PP interface [polypeptide binding]; other site 634452001144 dimer interface [polypeptide binding]; other site 634452001145 TPP binding site [chemical binding]; other site 634452001146 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634452001147 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 634452001148 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 634452001149 FeS/SAM binding site; other site 634452001150 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 634452001151 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 634452001152 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 634452001153 Domain of unknown function DUF21; Region: DUF21; pfam01595 634452001154 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 634452001155 Transporter associated domain; Region: CorC_HlyC; smart01091 634452001156 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 634452001157 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 634452001158 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634452001159 catalytic residue [active] 634452001160 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 634452001161 Fe-S cluster binding site [ion binding]; other site 634452001162 active site 634452001163 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 634452001164 binding surface 634452001165 TPR motif; other site 634452001166 Tetratricopeptide repeat; Region: TPR_12; pfam13424 634452001167 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 634452001168 TPR motif; other site 634452001169 TPR repeat; Region: TPR_11; pfam13414 634452001170 binding surface 634452001171 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 634452001172 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634452001173 NAD(P) binding site [chemical binding]; other site 634452001174 active site 634452001175 Predicted membrane protein [Function unknown]; Region: COG1238 634452001176 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 634452001177 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 634452001178 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 634452001179 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 634452001180 Walker A/P-loop; other site 634452001181 ATP binding site [chemical binding]; other site 634452001182 Q-loop/lid; other site 634452001183 ABC transporter signature motif; other site 634452001184 Walker B; other site 634452001185 D-loop; other site 634452001186 H-loop/switch region; other site 634452001187 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 634452001188 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 634452001189 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 634452001190 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 634452001191 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634452001192 active site 634452001193 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 634452001194 catalytic core [active] 634452001195 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 634452001196 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 634452001197 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634452001198 short chain dehydrogenase; Provisional; Region: PRK12744 634452001199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634452001200 NAD(P) binding site [chemical binding]; other site 634452001201 active site 634452001202 transcriptional regulator; Provisional; Region: PRK10632 634452001203 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452001204 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 634452001205 putative effector binding pocket; other site 634452001206 putative dimerization interface [polypeptide binding]; other site 634452001207 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 634452001208 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 634452001209 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 634452001210 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 634452001211 N-terminal plug; other site 634452001212 ligand-binding site [chemical binding]; other site 634452001213 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 634452001214 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 634452001215 intersubunit interface [polypeptide binding]; other site 634452001216 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 634452001217 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 634452001218 putative PBP binding regions; other site 634452001219 ABC-ATPase subunit interface; other site 634452001220 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 634452001221 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 634452001222 Walker A/P-loop; other site 634452001223 ATP binding site [chemical binding]; other site 634452001224 Q-loop/lid; other site 634452001225 ABC transporter signature motif; other site 634452001226 Walker B; other site 634452001227 D-loop; other site 634452001228 H-loop/switch region; other site 634452001229 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 634452001230 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 634452001231 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 634452001232 active site 634452001233 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 634452001234 nucleotide binding site [chemical binding]; other site 634452001235 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 634452001236 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 634452001237 putative active site [active] 634452001238 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u1; cd11493 634452001239 Na binding site [ion binding]; other site 634452001240 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 634452001241 long tail fiber, proximal subunit; Provisional; Region: 34; PHA02584 634452001242 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452001243 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452001244 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452001245 Hint domain; Region: Hint_2; pfam13403 634452001246 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 634452001247 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 634452001248 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 634452001249 DNA binding residues [nucleotide binding] 634452001250 dimerization interface [polypeptide binding]; other site 634452001251 Hint domain; Region: Hint_2; pfam13403 634452001252 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 634452001253 DNA photolyase; Region: DNA_photolyase; pfam00875 634452001254 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 634452001255 SelR domain; Region: SelR; pfam01641 634452001256 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 634452001257 Domain of unknown function DUF20; Region: UPF0118; pfam01594 634452001258 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 634452001259 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 634452001260 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 634452001261 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452001262 homodimer interface [polypeptide binding]; other site 634452001263 catalytic residue [active] 634452001264 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634452001265 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452001266 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452001267 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634452001268 Hint domain; Region: Hint_2; pfam13403 634452001269 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 634452001270 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 634452001271 dimerization interface [polypeptide binding]; other site 634452001272 DPS ferroxidase diiron center [ion binding]; other site 634452001273 ion pore; other site 634452001274 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 634452001275 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 634452001276 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 634452001277 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 634452001278 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 634452001279 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 634452001280 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634452001281 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452001282 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 634452001283 dimerization interface [polypeptide binding]; other site 634452001284 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 634452001285 methylamine dehydrogenase (amicyanin) heavy chain; Region: TTQ_MADH_Hv; TIGR02658 634452001286 Methylamine utilisation protein MauE; Region: MauE; pfam07291 634452001287 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 634452001288 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 634452001289 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 634452001290 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 634452001291 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 634452001292 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 634452001293 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 634452001294 active site 634452001295 catalytic tetrad [active] 634452001296 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634452001297 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452001298 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 634452001299 dimerization interface [polypeptide binding]; other site 634452001300 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 634452001301 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634452001302 NAD binding site [chemical binding]; other site 634452001303 catalytic residues [active] 634452001304 substrate binding site [chemical binding]; other site 634452001305 Cytochrome c; Region: Cytochrom_C; cl11414 634452001306 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634452001307 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 634452001308 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634452001309 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 634452001310 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 634452001311 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634452001312 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634452001313 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 634452001314 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 634452001315 catalytic loop [active] 634452001316 iron binding site [ion binding]; other site 634452001317 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 634452001318 Protein of unknown function (DUF563); Region: DUF563; pfam04577 634452001319 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 634452001320 S-adenosylmethionine binding site [chemical binding]; other site 634452001321 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 634452001322 Hint domain; Region: Hint_2; pfam13403 634452001323 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 634452001324 putative substrate translocation pore; other site 634452001325 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634452001326 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 634452001327 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 634452001328 Predicted integral membrane protein [Function unknown]; Region: COG0762 634452001329 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 634452001330 Protein of unknown function (DUF805); Region: DUF805; pfam05656 634452001331 CHRD domain; Region: CHRD; pfam07452 634452001332 Predicted membrane protein [Function unknown]; Region: COG3650 634452001333 META domain; Region: META; pfam03724 634452001334 Hint domain; Region: Hint_2; pfam13403 634452001335 T5orf172 domain; Region: T5orf172; pfam10544 634452001336 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 634452001337 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 634452001338 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 634452001339 N-terminal plug; other site 634452001340 ligand-binding site [chemical binding]; other site 634452001341 Cytochrome c; Region: Cytochrom_C; pfam00034 634452001342 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 634452001343 FAD dependent oxidoreductase; Region: DAO; pfam01266 634452001344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634452001345 NmrA-like family; Region: NmrA; pfam05368 634452001346 NAD(P) binding site [chemical binding]; other site 634452001347 active site 634452001348 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 634452001349 Hint domain; Region: Hint_2; pfam13403 634452001350 Hint domain; Region: Hint_2; pfam13403 634452001351 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 634452001352 Hint domain; Region: Hint_2; pfam13403 634452001353 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 634452001354 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 634452001355 non-specific DNA binding site [nucleotide binding]; other site 634452001356 salt bridge; other site 634452001357 sequence-specific DNA binding site [nucleotide binding]; other site 634452001358 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 634452001359 Catalytic site [active] 634452001360 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 634452001361 Hint domain; Region: Hint_2; pfam13403 634452001362 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 634452001363 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 634452001364 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 634452001365 DNA-binding interface [nucleotide binding]; DNA binding site 634452001366 Hint domain; Region: Hint_2; pfam13403 634452001367 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 634452001368 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 634452001369 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 634452001370 FeS/SAM binding site; other site 634452001371 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 634452001372 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 634452001373 Terminase-like family; Region: Terminase_6; pfam03237 634452001374 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 634452001375 hypothetical protein; Validated; Region: PRK01415 634452001376 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 634452001377 active site residue [active] 634452001378 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 634452001379 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 634452001380 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 634452001381 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 634452001382 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 634452001383 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 634452001384 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 634452001385 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452001386 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 634452001387 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 634452001388 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 634452001389 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634452001390 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 634452001391 Phosphotransferase enzyme family; Region: APH; pfam01636 634452001392 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 634452001393 substrate binding site [chemical binding]; other site 634452001394 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 634452001395 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 634452001396 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 634452001397 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 634452001398 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 634452001399 putative active site [active] 634452001400 putative substrate binding site [chemical binding]; other site 634452001401 putative cosubstrate binding site; other site 634452001402 catalytic site [active] 634452001403 Uncharacterized conserved protein [Function unknown]; Region: COG3189 634452001404 Predicted transcriptional regulator [Transcription]; Region: COG1959 634452001405 Transcriptional regulator; Region: Rrf2; cl17282 634452001406 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634452001407 malonic semialdehyde reductase; Provisional; Region: PRK10538 634452001408 NAD(P) binding site [chemical binding]; other site 634452001409 active site 634452001410 CrcB-like protein; Region: CRCB; cl09114 634452001411 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 634452001412 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 634452001413 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 634452001414 dinuclear metal binding motif [ion binding]; other site 634452001415 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 634452001416 Hint domain; Region: Hint_2; pfam13403 634452001417 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 634452001418 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634452001419 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 634452001420 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 634452001421 active site 634452001422 Zn binding site [ion binding]; other site 634452001423 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634452001424 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 634452001425 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634452001426 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634452001427 Coenzyme A transferase; Region: CoA_trans; smart00882 634452001428 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452001429 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452001430 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452001431 Coenzyme A transferase; Region: CoA_trans; cl17247 634452001432 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 634452001433 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 634452001434 MOFRL family; Region: MOFRL; pfam05161 634452001435 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 634452001436 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 634452001437 active site 634452001438 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 634452001439 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634452001440 NAD(P) binding site [chemical binding]; other site 634452001441 active site 634452001442 Protein of unknown function (DUF993); Region: DUF993; pfam06187 634452001443 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 634452001444 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 634452001445 DNA interaction; other site 634452001446 Metal-binding active site; metal-binding site 634452001447 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 634452001448 Electron transfer flavoprotein domain; Region: ETF; pfam01012 634452001449 Ligand binding site [chemical binding]; other site 634452001450 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452001451 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452001452 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452001453 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 634452001454 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 634452001455 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 634452001456 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634452001457 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 634452001458 NAD(P) binding site [chemical binding]; other site 634452001459 catalytic residues [active] 634452001460 choline dehydrogenase; Validated; Region: PRK02106 634452001461 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 634452001462 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 634452001463 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 634452001464 putative substrate translocation pore; other site 634452001465 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634452001466 Hint domain; Region: Hint_2; pfam13403 634452001467 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634452001468 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452001469 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452001470 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452001471 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 634452001472 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 634452001473 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 634452001474 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 634452001475 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 634452001476 tetramer interface [polypeptide binding]; other site 634452001477 TPP-binding site [chemical binding]; other site 634452001478 heterodimer interface [polypeptide binding]; other site 634452001479 phosphorylation loop region [posttranslational modification] 634452001480 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 634452001481 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 634452001482 alpha subunit interface [polypeptide binding]; other site 634452001483 TPP binding site [chemical binding]; other site 634452001484 heterodimer interface [polypeptide binding]; other site 634452001485 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634452001486 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 634452001487 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 634452001488 E3 interaction surface; other site 634452001489 lipoyl attachment site [posttranslational modification]; other site 634452001490 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 634452001491 catalytic site [active] 634452001492 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 634452001493 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 634452001494 putative dimer interface [polypeptide binding]; other site 634452001495 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 634452001496 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634452001497 FOG: WD40 repeat [General function prediction only]; Region: COG2319 634452001498 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 634452001499 structural tetrad; other site 634452001500 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 634452001501 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 634452001502 P-loop, Walker A motif; other site 634452001503 Base recognition motif; other site 634452001504 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 634452001505 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 634452001506 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 634452001507 putative ion selectivity filter; other site 634452001508 putative pore gating glutamate residue; other site 634452001509 putative H+/Cl- coupling transport residue; other site 634452001510 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 634452001511 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 634452001512 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 634452001513 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 634452001514 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634452001515 acyl-CoA esterase; Provisional; Region: PRK10673 634452001516 PGAP1-like protein; Region: PGAP1; pfam07819 634452001517 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 634452001518 Ligand Binding Site [chemical binding]; other site 634452001519 Predicted membrane protein [Function unknown]; Region: COG1297 634452001520 putative oligopeptide transporter, OPT family; Region: TIGR00733 634452001521 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 634452001522 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 634452001523 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 634452001524 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 634452001525 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 634452001526 ATP binding site [chemical binding]; other site 634452001527 substrate interface [chemical binding]; other site 634452001528 Bacterial SH3 domain; Region: SH3_4; pfam06347 634452001529 Bacterial SH3 domain; Region: SH3_4; pfam06347 634452001530 pyruvate kinase; Provisional; Region: PRK06247 634452001531 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 634452001532 domain interfaces; other site 634452001533 active site 634452001534 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 634452001535 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 634452001536 putative substrate translocation pore; other site 634452001537 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634452001538 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 634452001539 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 634452001540 G1 box; other site 634452001541 putative GEF interaction site [polypeptide binding]; other site 634452001542 GTP/Mg2+ binding site [chemical binding]; other site 634452001543 Switch I region; other site 634452001544 G2 box; other site 634452001545 G3 box; other site 634452001546 Switch II region; other site 634452001547 G4 box; other site 634452001548 G5 box; other site 634452001549 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 634452001550 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 634452001551 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 634452001552 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634452001553 hydroxyglutarate oxidase; Provisional; Region: PRK11728 634452001554 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 634452001555 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634452001556 isocitrate dehydrogenase; Validated; Region: PRK08299 634452001557 hypothetical protein; Provisional; Region: PRK08912 634452001558 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 634452001559 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452001560 homodimer interface [polypeptide binding]; other site 634452001561 catalytic residue [active] 634452001562 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 634452001563 Nitrogen regulatory protein P-II; Region: P-II; smart00938 634452001564 glutamine synthetase; Provisional; Region: glnA; PRK09469 634452001565 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 634452001566 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 634452001567 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634452001568 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 634452001569 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 634452001570 Trp docking motif [polypeptide binding]; other site 634452001571 putative active site [active] 634452001572 Predicted transcriptional regulator [Transcription]; Region: COG2932 634452001573 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 634452001574 Catalytic site [active] 634452001575 GTP-binding protein LepA; Provisional; Region: PRK05433 634452001576 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 634452001577 G1 box; other site 634452001578 putative GEF interaction site [polypeptide binding]; other site 634452001579 GTP/Mg2+ binding site [chemical binding]; other site 634452001580 Switch I region; other site 634452001581 G2 box; other site 634452001582 G3 box; other site 634452001583 Switch II region; other site 634452001584 G4 box; other site 634452001585 G5 box; other site 634452001586 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 634452001587 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 634452001588 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 634452001589 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 634452001590 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 634452001591 Methyltransferase domain; Region: Methyltransf_23; pfam13489 634452001592 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 634452001593 S-adenosylmethionine binding site [chemical binding]; other site 634452001594 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 634452001595 DEAD-like helicases superfamily; Region: DEXDc; smart00487 634452001596 ATP binding site [chemical binding]; other site 634452001597 Mg++ binding site [ion binding]; other site 634452001598 motif III; other site 634452001599 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 634452001600 nucleotide binding region [chemical binding]; other site 634452001601 ATP-binding site [chemical binding]; other site 634452001602 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 634452001603 putative catalytic site [active] 634452001604 putative metal binding site [ion binding]; other site 634452001605 putative phosphate binding site [ion binding]; other site 634452001606 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 634452001607 active site clefts [active] 634452001608 zinc binding site [ion binding]; other site 634452001609 dimer interface [polypeptide binding]; other site 634452001610 LabA_like proteins; Region: LabA; cd10911 634452001611 Uncharacterized conserved protein [Function unknown]; Region: COG1432 634452001612 putative metal binding site [ion binding]; other site 634452001613 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 634452001614 catalytic center binding site [active] 634452001615 ATP binding site [chemical binding]; other site 634452001616 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 634452001617 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 634452001618 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 634452001619 Zn2+ binding site [ion binding]; other site 634452001620 Mg2+ binding site [ion binding]; other site 634452001621 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 634452001622 synthetase active site [active] 634452001623 NTP binding site [chemical binding]; other site 634452001624 metal binding site [ion binding]; metal-binding site 634452001625 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 634452001626 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 634452001627 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 634452001628 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 634452001629 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 634452001630 Catalytic site [active] 634452001631 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 634452001632 ribonuclease III; Reviewed; Region: rnc; PRK00102 634452001633 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 634452001634 dimerization interface [polypeptide binding]; other site 634452001635 active site 634452001636 metal binding site [ion binding]; metal-binding site 634452001637 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 634452001638 GTPase Era; Reviewed; Region: era; PRK00089 634452001639 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 634452001640 G1 box; other site 634452001641 GTP/Mg2+ binding site [chemical binding]; other site 634452001642 Switch I region; other site 634452001643 G2 box; other site 634452001644 Switch II region; other site 634452001645 G3 box; other site 634452001646 G4 box; other site 634452001647 G5 box; other site 634452001648 KH domain; Region: KH_2; pfam07650 634452001649 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 634452001650 putative nucleotide binding site [chemical binding]; other site 634452001651 uridine monophosphate binding site [chemical binding]; other site 634452001652 homohexameric interface [polypeptide binding]; other site 634452001653 ribosome recycling factor; Reviewed; Region: frr; PRK00083 634452001654 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 634452001655 hinge region; other site 634452001656 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 634452001657 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 634452001658 catalytic residue [active] 634452001659 putative FPP diphosphate binding site; other site 634452001660 putative FPP binding hydrophobic cleft; other site 634452001661 dimer interface [polypeptide binding]; other site 634452001662 putative IPP diphosphate binding site; other site 634452001663 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 634452001664 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 634452001665 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 634452001666 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 634452001667 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 634452001668 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 634452001669 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 634452001670 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 634452001671 active site 634452001672 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 634452001673 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 634452001674 putative substrate binding region [chemical binding]; other site 634452001675 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634452001676 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 634452001677 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634452001678 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634452001679 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634452001680 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634452001681 Surface antigen; Region: Bac_surface_Ag; pfam01103 634452001682 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 634452001683 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 634452001684 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 634452001685 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 634452001686 trimer interface [polypeptide binding]; other site 634452001687 active site 634452001688 UDP-GlcNAc binding site [chemical binding]; other site 634452001689 lipid binding site [chemical binding]; lipid-binding site 634452001690 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 634452001691 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 634452001692 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 634452001693 active site 634452001694 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 634452001695 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 634452001696 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 634452001697 dimer interface [polypeptide binding]; other site 634452001698 active site 634452001699 metal binding site [ion binding]; metal-binding site 634452001700 glutathione binding site [chemical binding]; other site 634452001701 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 634452001702 Ribonuclease P; Region: Ribonuclease_P; pfam00825 634452001703 membrane protein insertase; Provisional; Region: PRK01318 634452001704 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 634452001705 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 634452001706 G1 box; other site 634452001707 GTP/Mg2+ binding site [chemical binding]; other site 634452001708 Switch I region; other site 634452001709 G2 box; other site 634452001710 G3 box; other site 634452001711 Switch II region; other site 634452001712 G4 box; other site 634452001713 G5 box; other site 634452001714 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 634452001715 homohexameric interface [polypeptide binding]; other site 634452001716 feedback inhibition sensing region; other site 634452001717 nucleotide binding site [chemical binding]; other site 634452001718 N-acetyl-L-glutamate binding site [chemical binding]; other site 634452001719 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 634452001720 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 634452001721 trimer interface [polypeptide binding]; other site 634452001722 active site 634452001723 substrate binding site [chemical binding]; other site 634452001724 CoA binding site [chemical binding]; other site 634452001725 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 634452001726 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 634452001727 metal binding site [ion binding]; metal-binding site 634452001728 dimer interface [polypeptide binding]; other site 634452001729 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 634452001730 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 634452001731 dimerization interface 3.5A [polypeptide binding]; other site 634452001732 active site 634452001733 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 634452001734 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 634452001735 putative active site [active] 634452001736 substrate binding site [chemical binding]; other site 634452001737 putative cosubstrate binding site; other site 634452001738 catalytic site [active] 634452001739 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 634452001740 substrate binding site [chemical binding]; other site 634452001741 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 634452001742 active site 634452001743 catalytic residues [active] 634452001744 metal binding site [ion binding]; metal-binding site 634452001745 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 634452001746 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 634452001747 putative dimer interface [polypeptide binding]; other site 634452001748 Protein of unknown function (DUF1150); Region: DUF1150; cl11577 634452001749 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 634452001750 30S subunit binding site; other site 634452001751 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 634452001752 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 634452001753 MOSC domain; Region: MOSC; pfam03473 634452001754 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 634452001755 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 634452001756 Walker A/P-loop; other site 634452001757 ATP binding site [chemical binding]; other site 634452001758 Q-loop/lid; other site 634452001759 ABC transporter signature motif; other site 634452001760 Walker B; other site 634452001761 D-loop; other site 634452001762 H-loop/switch region; other site 634452001763 OstA-like protein; Region: OstA; cl00844 634452001764 OstA-like protein; Region: OstA; cl00844 634452001765 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 634452001766 KpsF/GutQ family protein; Region: kpsF; TIGR00393 634452001767 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 634452001768 putative active site [active] 634452001769 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 634452001770 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 634452001771 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 634452001772 catalytic site [active] 634452001773 putative active site [active] 634452001774 putative substrate binding site [chemical binding]; other site 634452001775 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 634452001776 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 634452001777 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 634452001778 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 634452001779 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 634452001780 short chain dehydrogenase; Provisional; Region: PRK07024 634452001781 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634452001782 NAD(P) binding site [chemical binding]; other site 634452001783 active site 634452001784 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 634452001785 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 634452001786 catalytic site [active] 634452001787 G-X2-G-X-G-K; other site 634452001788 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 634452001789 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 634452001790 putative ribose interaction site [chemical binding]; other site 634452001791 putative ADP binding site [chemical binding]; other site 634452001792 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 634452001793 active site 634452001794 nucleotide binding site [chemical binding]; other site 634452001795 HIGH motif; other site 634452001796 KMSKS motif; other site 634452001797 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 634452001798 dimerization interface [polypeptide binding]; other site 634452001799 putative active cleft [active] 634452001800 replicative DNA helicase; Provisional; Region: PRK09165 634452001801 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 634452001802 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 634452001803 Walker A motif; other site 634452001804 ATP binding site [chemical binding]; other site 634452001805 Walker B motif; other site 634452001806 DNA binding loops [nucleotide binding] 634452001807 Nuclease-related domain; Region: NERD; pfam08378 634452001808 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 634452001809 Mechanosensitive ion channel; Region: MS_channel; pfam00924 634452001810 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 634452001811 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 634452001812 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452001813 Walker A/P-loop; other site 634452001814 ATP binding site [chemical binding]; other site 634452001815 Q-loop/lid; other site 634452001816 ABC transporter signature motif; other site 634452001817 Walker B; other site 634452001818 D-loop; other site 634452001819 H-loop/switch region; other site 634452001820 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 634452001821 Permease; Region: Permease; pfam02405 634452001822 DNA repair protein RadA; Provisional; Region: PRK11823 634452001823 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 634452001824 Walker A motif/ATP binding site; other site 634452001825 ATP binding site [chemical binding]; other site 634452001826 Walker B motif; other site 634452001827 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 634452001828 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 634452001829 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 634452001830 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 634452001831 Proline dehydrogenase; Region: Pro_dh; pfam01619 634452001832 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 634452001833 NAD(P) binding site [chemical binding]; other site 634452001834 catalytic residues [active] 634452001835 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 634452001836 Transcriptional regulators [Transcription]; Region: GntR; COG1802 634452001837 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 634452001838 DNA-binding site [nucleotide binding]; DNA binding site 634452001839 FCD domain; Region: FCD; pfam07729 634452001840 Protein of unknown function (DUF2501); Region: DUF2501; cl08197 634452001841 acetyl-CoA synthetase; Provisional; Region: PRK00174 634452001842 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 634452001843 acyl-activating enzyme (AAE) consensus motif; other site 634452001844 AMP binding site [chemical binding]; other site 634452001845 active site 634452001846 CoA binding site [chemical binding]; other site 634452001847 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 634452001848 FtsJ-like methyltransferase; Region: FtsJ; cl17430 634452001849 Protein of unknown function (DUF423); Region: DUF423; pfam04241 634452001850 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 634452001851 hypothetical protein; Validated; Region: PRK09039 634452001852 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 634452001853 FAD binding domain; Region: FAD_binding_4; pfam01565 634452001854 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 634452001855 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 634452001856 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 634452001857 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 634452001858 active site 634452001859 multifunctional aminopeptidase A; Provisional; Region: PRK00913 634452001860 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 634452001861 interface (dimer of trimers) [polypeptide binding]; other site 634452001862 Substrate-binding/catalytic site; other site 634452001863 Zn-binding sites [ion binding]; other site 634452001864 DNA polymerase III subunit chi; Validated; Region: PRK05728 634452001865 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 634452001866 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 634452001867 active site 634452001868 catalytic tetrad [active] 634452001869 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 634452001870 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 634452001871 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 634452001872 protein binding site [polypeptide binding]; other site 634452001873 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 634452001874 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 634452001875 ATP binding site [chemical binding]; other site 634452001876 putative Mg++ binding site [ion binding]; other site 634452001877 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 634452001878 nucleotide binding region [chemical binding]; other site 634452001879 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 634452001880 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 634452001881 dimerization interface [polypeptide binding]; other site 634452001882 domain crossover interface; other site 634452001883 redox-dependent activation switch; other site 634452001884 ornithine carbamoyltransferase; Provisional; Region: PRK00779 634452001885 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 634452001886 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 634452001887 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 634452001888 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 634452001889 inhibitor-cofactor binding pocket; inhibition site 634452001890 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452001891 catalytic residue [active] 634452001892 RecX family; Region: RecX; pfam02631 634452001893 CHAP domain; Region: CHAP; cl17642 634452001894 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 634452001895 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 634452001896 intersubunit interface [polypeptide binding]; other site 634452001897 active site 634452001898 Zn2+ binding site [ion binding]; other site 634452001899 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 634452001900 Cupin domain; Region: Cupin_2; cl17218 634452001901 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 634452001902 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 634452001903 motif II; other site 634452001904 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 634452001905 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 634452001906 active site 634452001907 Riboflavin kinase; Region: Flavokinase; smart00904 634452001908 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 634452001909 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634452001910 active site 634452001911 HIGH motif; other site 634452001912 nucleotide binding site [chemical binding]; other site 634452001913 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 634452001914 active site 634452001915 KMSKS motif; other site 634452001916 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 634452001917 tRNA binding surface [nucleotide binding]; other site 634452001918 anticodon binding site; other site 634452001919 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 634452001920 lipoprotein signal peptidase; Provisional; Region: PRK14770 634452001921 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 634452001922 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 634452001923 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 634452001924 ATP binding site [chemical binding]; other site 634452001925 Mg2+ binding site [ion binding]; other site 634452001926 G-X-G motif; other site 634452001927 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 634452001928 ATP binding site [chemical binding]; other site 634452001929 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 634452001930 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 634452001931 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 634452001932 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 634452001933 EamA-like transporter family; Region: EamA; pfam00892 634452001934 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 634452001935 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 634452001936 Mg2+ binding site [ion binding]; other site 634452001937 G-X-G motif; other site 634452001938 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 634452001939 anchoring element; other site 634452001940 dimer interface [polypeptide binding]; other site 634452001941 ATP binding site [chemical binding]; other site 634452001942 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 634452001943 active site 634452001944 putative metal-binding site [ion binding]; other site 634452001945 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 634452001946 Rrf2 family protein; Region: rrf2_super; TIGR00738 634452001947 Transcriptional regulator; Region: Rrf2; pfam02082 634452001948 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 634452001949 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 634452001950 dimer interface [polypeptide binding]; other site 634452001951 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452001952 catalytic residue [active] 634452001953 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 634452001954 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 634452001955 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 634452001956 ligand binding site [chemical binding]; other site 634452001957 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 634452001958 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 634452001959 C-terminal peptidase (prc); Region: prc; TIGR00225 634452001960 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 634452001961 protein binding site [polypeptide binding]; other site 634452001962 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 634452001963 Catalytic dyad [active] 634452001964 Exoribonuclease R [Transcription]; Region: VacB; COG0557 634452001965 RNB domain; Region: RNB; pfam00773 634452001966 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 634452001967 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 634452001968 active site 634452001969 interdomain interaction site; other site 634452001970 putative metal-binding site [ion binding]; other site 634452001971 nucleotide binding site [chemical binding]; other site 634452001972 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 634452001973 domain I; other site 634452001974 DNA binding groove [nucleotide binding] 634452001975 phosphate binding site [ion binding]; other site 634452001976 domain II; other site 634452001977 domain III; other site 634452001978 nucleotide binding site [chemical binding]; other site 634452001979 catalytic site [active] 634452001980 domain IV; other site 634452001981 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 634452001982 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 634452001983 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 634452001984 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 634452001985 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 634452001986 DNA protecting protein DprA; Region: dprA; TIGR00732 634452001987 DDE superfamily endonuclease; Region: DDE_5; pfam13546 634452001988 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452001989 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634452001990 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 634452001991 DNA protecting protein DprA; Region: dprA; TIGR00732 634452001992 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 634452001993 dihydroorotase; Validated; Region: pyrC; PRK09357 634452001994 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 634452001995 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 634452001996 active site 634452001997 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 634452001998 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 634452001999 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 634452002000 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 634452002001 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634452002002 active site 634452002003 HIGH motif; other site 634452002004 nucleotide binding site [chemical binding]; other site 634452002005 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 634452002006 active site 634452002007 KMSKS motif; other site 634452002008 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 634452002009 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 634452002010 Competence protein; Region: Competence; pfam03772 634452002011 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 634452002012 Predicted ATPase [General function prediction only]; Region: COG1485 634452002013 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 634452002014 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 634452002015 TPP-binding site [chemical binding]; other site 634452002016 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 634452002017 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 634452002018 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 634452002019 E3 interaction surface; other site 634452002020 lipoyl attachment site [posttranslational modification]; other site 634452002021 e3 binding domain; Region: E3_binding; pfam02817 634452002022 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 634452002023 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 634452002024 E3 interaction surface; other site 634452002025 lipoyl attachment site [posttranslational modification]; other site 634452002026 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 634452002027 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 634452002028 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634452002029 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 634452002030 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 634452002031 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 634452002032 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 634452002033 homotetramer interface [polypeptide binding]; other site 634452002034 ligand binding site [chemical binding]; other site 634452002035 catalytic site [active] 634452002036 NAD binding site [chemical binding]; other site 634452002037 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 634452002038 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 634452002039 putative acyl-acceptor binding pocket; other site 634452002040 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 634452002041 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 634452002042 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 634452002043 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 634452002044 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 634452002045 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 634452002046 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 634452002047 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 634452002048 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 634452002049 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 634452002050 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 634452002051 motif 1; other site 634452002052 active site 634452002053 motif 2; other site 634452002054 motif 3; other site 634452002055 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 634452002056 TraB family; Region: TraB; cl12050 634452002057 Predicted membrane protein [Function unknown]; Region: COG2246 634452002058 GtrA-like protein; Region: GtrA; pfam04138 634452002059 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 634452002060 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 634452002061 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 634452002062 ligand binding site [chemical binding]; other site 634452002063 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 634452002064 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional; Region: PRK14021 634452002065 ADP binding site [chemical binding]; other site 634452002066 magnesium binding site [ion binding]; other site 634452002067 putative shikimate binding site; other site 634452002068 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 634452002069 active site 634452002070 dimer interface [polypeptide binding]; other site 634452002071 metal binding site [ion binding]; metal-binding site 634452002072 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 634452002073 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 634452002074 active site 634452002075 DNA binding site [nucleotide binding] 634452002076 Int/Topo IB signature motif; other site 634452002077 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 634452002078 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 634452002079 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 634452002080 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 634452002081 putative MPT binding site; other site 634452002082 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 634452002083 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634452002084 active site 634452002085 nucleotide binding site [chemical binding]; other site 634452002086 HIGH motif; other site 634452002087 KMSKS motif; other site 634452002088 Predicted integral membrane protein [Function unknown]; Region: COG0392 634452002089 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 634452002090 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 634452002091 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 634452002092 UGMP family protein; Validated; Region: PRK09604 634452002093 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 634452002094 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 634452002095 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 634452002096 domain interfaces; other site 634452002097 active site 634452002098 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 634452002099 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 634452002100 active site 634452002101 preprotein translocase subunit SecB; Validated; Region: PRK05751 634452002102 SecA binding site; other site 634452002103 Preprotein binding site; other site 634452002104 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 634452002105 catalytic core [active] 634452002106 Tim44-like domain; Region: Tim44; pfam04280 634452002107 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 634452002108 DNA methylase; Region: N6_N4_Mtase; pfam01555 634452002109 Haem-binding domain; Region: Haem_bd; pfam14376 634452002110 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 634452002111 Smr domain; Region: Smr; pfam01713 634452002112 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 634452002113 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 634452002114 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 634452002115 Qi binding site; other site 634452002116 intrachain domain interface; other site 634452002117 interchain domain interface [polypeptide binding]; other site 634452002118 heme bH binding site [chemical binding]; other site 634452002119 heme bL binding site [chemical binding]; other site 634452002120 Qo binding site; other site 634452002121 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 634452002122 intrachain domain interface; other site 634452002123 interchain domain interface [polypeptide binding]; other site 634452002124 Qi binding site; other site 634452002125 Qo binding site; other site 634452002126 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 634452002127 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 634452002128 Protein of unknown function (DUF4232); Region: DUF4232; pfam14016 634452002129 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 634452002130 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 634452002131 FMN binding site [chemical binding]; other site 634452002132 dimer interface [polypeptide binding]; other site 634452002133 ornithine cyclodeaminase; Validated; Region: PRK07340 634452002134 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 634452002135 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 634452002136 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 634452002137 NAD(P) binding site [chemical binding]; other site 634452002138 catalytic residues [active] 634452002139 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634452002140 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634452002141 WHG domain; Region: WHG; pfam13305 634452002142 Transposase; Region: HTH_Tnp_1; pfam01527 634452002143 HTH-like domain; Region: HTH_21; pfam13276 634452002144 Integrase core domain; Region: rve; pfam00665 634452002145 Integrase core domain; Region: rve_3; pfam13683 634452002146 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452002147 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634452002148 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 634452002149 catalytic residues [active] 634452002150 catalytic nucleophile [active] 634452002151 Presynaptic Site I dimer interface [polypeptide binding]; other site 634452002152 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634452002153 Synaptic Flat tetramer interface [polypeptide binding]; other site 634452002154 Synaptic Site I dimer interface [polypeptide binding]; other site 634452002155 DNA binding site [nucleotide binding] 634452002156 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 634452002157 DNA-binding interface [nucleotide binding]; DNA binding site 634452002158 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 634452002159 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 634452002160 active site 634452002161 DNA binding site [nucleotide binding] 634452002162 Int/Topo IB signature motif; other site 634452002163 integrase; Provisional; Region: PRK09692 634452002164 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 634452002165 active site 634452002166 Int/Topo IB signature motif; other site 634452002167 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cl07889 634452002168 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 634452002169 HicB family; Region: HicB; pfam05534 634452002170 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 634452002171 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 634452002172 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 634452002173 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452002174 Walker A/P-loop; other site 634452002175 ATP binding site [chemical binding]; other site 634452002176 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 634452002177 synthetase active site [active] 634452002178 NTP binding site [chemical binding]; other site 634452002179 metal binding site [ion binding]; metal-binding site 634452002180 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634452002181 Transposase; Region: HTH_Tnp_1; pfam01527 634452002182 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 634452002183 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634452002184 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 634452002185 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634452002186 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 634452002187 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 634452002188 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 634452002189 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 634452002190 HTH-like domain; Region: HTH_21; pfam13276 634452002191 Integrase core domain; Region: rve; pfam00665 634452002192 Integrase core domain; Region: rve_3; pfam13683 634452002193 Transposase; Region: HTH_Tnp_1; pfam01527 634452002194 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 634452002195 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 634452002196 non-specific DNA binding site [nucleotide binding]; other site 634452002197 salt bridge; other site 634452002198 sequence-specific DNA binding site [nucleotide binding]; other site 634452002199 hypothetical protein; Validated; Region: PRK07078 634452002200 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 634452002201 active site 634452002202 metal binding site [ion binding]; metal-binding site 634452002203 interdomain interaction site; other site 634452002204 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 634452002205 Domain of unknown function (DUF927); Region: DUF927; pfam06048 634452002206 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 634452002207 active site 634452002208 oligomerization interface [polypeptide binding]; other site 634452002209 metal binding site [ion binding]; metal-binding site 634452002210 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 634452002211 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 634452002212 active site 634452002213 FMN binding site [chemical binding]; other site 634452002214 substrate binding site [chemical binding]; other site 634452002215 homotetramer interface [polypeptide binding]; other site 634452002216 catalytic residue [active] 634452002217 Helix-turn-helix domain; Region: HTH_20; pfam12840 634452002218 dimerization interface [polypeptide binding]; other site 634452002219 putative DNA binding site [nucleotide binding]; other site 634452002220 putative Zn2+ binding site [ion binding]; other site 634452002221 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 634452002222 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 634452002223 putative NAD(P) binding site [chemical binding]; other site 634452002224 putative substrate binding site [chemical binding]; other site 634452002225 catalytic Zn binding site [ion binding]; other site 634452002226 structural Zn binding site [ion binding]; other site 634452002227 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 634452002228 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 634452002229 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 634452002230 NAD binding site [chemical binding]; other site 634452002231 homodimer interface [polypeptide binding]; other site 634452002232 active site 634452002233 substrate binding site [chemical binding]; other site 634452002234 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 634452002235 diaminopimelate decarboxylase; Region: lysA; TIGR01048 634452002236 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 634452002237 active site 634452002238 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 634452002239 substrate binding site [chemical binding]; other site 634452002240 catalytic residues [active] 634452002241 dimer interface [polypeptide binding]; other site 634452002242 argininosuccinate lyase; Provisional; Region: PRK00855 634452002243 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 634452002244 active sites [active] 634452002245 tetramer interface [polypeptide binding]; other site 634452002246 N-formylglutamate amidohydrolase; Region: FGase; cl01522 634452002247 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 634452002248 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 634452002249 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 634452002250 shikimate binding site; other site 634452002251 NAD(P) binding site [chemical binding]; other site 634452002252 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 634452002253 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 634452002254 CoA-binding site [chemical binding]; other site 634452002255 ATP-binding [chemical binding]; other site 634452002256 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 634452002257 active site 634452002258 catalytic site [active] 634452002259 substrate binding site [chemical binding]; other site 634452002260 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634452002261 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 634452002262 putative ADP-binding pocket [chemical binding]; other site 634452002263 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 634452002264 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 634452002265 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 634452002266 substrate binding site [chemical binding]; other site 634452002267 hexamer interface [polypeptide binding]; other site 634452002268 metal binding site [ion binding]; metal-binding site 634452002269 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 634452002270 putative RNA binding site [nucleotide binding]; other site 634452002271 16S rRNA methyltransferase B; Provisional; Region: PRK10901 634452002272 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 634452002273 S-adenosylmethionine binding site [chemical binding]; other site 634452002274 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 634452002275 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 634452002276 active site 634452002277 substrate binding site [chemical binding]; other site 634452002278 cosubstrate binding site; other site 634452002279 catalytic site [active] 634452002280 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 634452002281 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 634452002282 dimerization interface [polypeptide binding]; other site 634452002283 putative ATP binding site [chemical binding]; other site 634452002284 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 634452002285 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 634452002286 polyphosphate kinase; Provisional; Region: PRK05443 634452002287 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 634452002288 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 634452002289 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 634452002290 putative domain interface [polypeptide binding]; other site 634452002291 putative active site [active] 634452002292 catalytic site [active] 634452002293 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 634452002294 putative domain interface [polypeptide binding]; other site 634452002295 putative active site [active] 634452002296 catalytic site [active] 634452002297 exopolyphosphatase; Region: exo_poly_only; TIGR03706 634452002298 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 634452002299 Cache domain; Region: Cache_1; pfam02743 634452002300 cyclase homology domain; Region: CHD; cd07302 634452002301 nucleotidyl binding site; other site 634452002302 metal binding site [ion binding]; metal-binding site 634452002303 dimer interface [polypeptide binding]; other site 634452002304 Permease; Region: Permease; pfam02405 634452002305 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 634452002306 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452002307 Q-loop/lid; other site 634452002308 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 634452002309 mce related protein; Region: MCE; pfam02470 634452002310 sugar binding site [chemical binding]; other site 634452002311 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 634452002312 Inward rectifier potassium channel; Region: IRK; pfam01007 634452002313 Fusaric acid resistance protein family; Region: FUSC; pfam04632 634452002314 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634452002315 Fusaric acid resistance protein family; Region: FUSC; pfam04632 634452002316 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634452002317 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 634452002318 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 634452002319 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 634452002320 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 634452002321 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 634452002322 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 634452002323 catalytic residues [active] 634452002324 central insert; other site 634452002325 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 634452002326 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 634452002327 heme exporter protein CcmC; Region: ccmC; TIGR01191 634452002328 YciI-like protein; Reviewed; Region: PRK12863 634452002329 EVE domain; Region: EVE; pfam01878 634452002330 Putative phosphatase (DUF442); Region: DUF442; cl17385 634452002331 EcsC protein family; Region: EcsC; pfam12787 634452002332 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 634452002333 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 634452002334 dimerization interface [polypeptide binding]; other site 634452002335 ligand binding site [chemical binding]; other site 634452002336 NADP binding site [chemical binding]; other site 634452002337 catalytic site [active] 634452002338 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 634452002339 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 634452002340 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 634452002341 Protein of unknown function; Region: DUF3971; pfam13116 634452002342 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 634452002343 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 634452002344 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 634452002345 metal binding triad; other site 634452002346 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 634452002347 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 634452002348 metal binding triad; other site 634452002349 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 634452002350 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 634452002351 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 634452002352 catalytic triad [active] 634452002353 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 634452002354 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 634452002355 putative substrate translocation pore; other site 634452002356 RmuC family; Region: RmuC; pfam02646 634452002357 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634452002358 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 634452002359 active site 634452002360 phosphorylation site [posttranslational modification] 634452002361 intermolecular recognition site; other site 634452002362 dimerization interface [polypeptide binding]; other site 634452002363 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 634452002364 DNA binding site [nucleotide binding] 634452002365 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634452002366 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 634452002367 dimerization interface [polypeptide binding]; other site 634452002368 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 634452002369 ATP binding site [chemical binding]; other site 634452002370 Mg2+ binding site [ion binding]; other site 634452002371 G-X-G motif; other site 634452002372 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 634452002373 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 634452002374 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634452002375 HlyD family secretion protein; Region: HlyD_3; pfam13437 634452002376 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 634452002377 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 634452002378 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 634452002379 23S rRNA interface [nucleotide binding]; other site 634452002380 L7/L12 interface [polypeptide binding]; other site 634452002381 putative thiostrepton binding site; other site 634452002382 L25 interface [polypeptide binding]; other site 634452002383 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 634452002384 mRNA/rRNA interface [nucleotide binding]; other site 634452002385 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 634452002386 23S rRNA interface [nucleotide binding]; other site 634452002387 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 634452002388 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 634452002389 L11 interface [polypeptide binding]; other site 634452002390 putative EF-Tu interaction site [polypeptide binding]; other site 634452002391 putative EF-G interaction site [polypeptide binding]; other site 634452002392 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 634452002393 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 634452002394 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 634452002395 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 634452002396 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 634452002397 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 634452002398 RPB1 interaction site [polypeptide binding]; other site 634452002399 RPB11 interaction site [polypeptide binding]; other site 634452002400 RPB10 interaction site [polypeptide binding]; other site 634452002401 RPB3 interaction site [polypeptide binding]; other site 634452002402 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 634452002403 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 634452002404 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 634452002405 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 634452002406 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 634452002407 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 634452002408 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 634452002409 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 634452002410 DNA binding site [nucleotide binding] 634452002411 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 634452002412 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 634452002413 S17 interaction site [polypeptide binding]; other site 634452002414 S8 interaction site; other site 634452002415 16S rRNA interaction site [nucleotide binding]; other site 634452002416 streptomycin interaction site [chemical binding]; other site 634452002417 23S rRNA interaction site [nucleotide binding]; other site 634452002418 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 634452002419 30S ribosomal protein S7; Validated; Region: PRK05302 634452002420 elongation factor Tu; Reviewed; Region: PRK00049 634452002421 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 634452002422 G1 box; other site 634452002423 GEF interaction site [polypeptide binding]; other site 634452002424 GTP/Mg2+ binding site [chemical binding]; other site 634452002425 Switch I region; other site 634452002426 G2 box; other site 634452002427 G3 box; other site 634452002428 Switch II region; other site 634452002429 G4 box; other site 634452002430 G5 box; other site 634452002431 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 634452002432 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 634452002433 Antibiotic Binding Site [chemical binding]; other site 634452002434 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 634452002435 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 634452002436 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 634452002437 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 634452002438 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 634452002439 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 634452002440 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 634452002441 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 634452002442 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 634452002443 putative translocon binding site; other site 634452002444 protein-rRNA interface [nucleotide binding]; other site 634452002445 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 634452002446 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 634452002447 G-X-X-G motif; other site 634452002448 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 634452002449 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 634452002450 23S rRNA interface [nucleotide binding]; other site 634452002451 5S rRNA interface [nucleotide binding]; other site 634452002452 putative antibiotic binding site [chemical binding]; other site 634452002453 L25 interface [polypeptide binding]; other site 634452002454 L27 interface [polypeptide binding]; other site 634452002455 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 634452002456 23S rRNA interface [nucleotide binding]; other site 634452002457 putative translocon interaction site; other site 634452002458 signal recognition particle (SRP54) interaction site; other site 634452002459 L23 interface [polypeptide binding]; other site 634452002460 trigger factor interaction site; other site 634452002461 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 634452002462 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 634452002463 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 634452002464 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 634452002465 RNA binding site [nucleotide binding]; other site 634452002466 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 634452002467 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 634452002468 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 634452002469 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 634452002470 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 634452002471 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 634452002472 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 634452002473 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 634452002474 5S rRNA interface [nucleotide binding]; other site 634452002475 23S rRNA interface [nucleotide binding]; other site 634452002476 L5 interface [polypeptide binding]; other site 634452002477 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 634452002478 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 634452002479 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 634452002480 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 634452002481 23S rRNA binding site [nucleotide binding]; other site 634452002482 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 634452002483 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 634452002484 SecY translocase; Region: SecY; pfam00344 634452002485 adenylate kinase; Reviewed; Region: adk; PRK00279 634452002486 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 634452002487 AMP-binding site [chemical binding]; other site 634452002488 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 634452002489 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 634452002490 30S ribosomal protein S13; Region: bact_S13; TIGR03631 634452002491 30S ribosomal protein S11; Validated; Region: PRK05309 634452002492 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 634452002493 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 634452002494 alphaNTD - beta interaction site [polypeptide binding]; other site 634452002495 alphaNTD homodimer interface [polypeptide binding]; other site 634452002496 alphaNTD - beta' interaction site [polypeptide binding]; other site 634452002497 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 634452002498 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 634452002499 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 634452002500 NMT1-like family; Region: NMT1_2; pfam13379 634452002501 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 634452002502 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 634452002503 dimer interface [polypeptide binding]; other site 634452002504 conserved gate region; other site 634452002505 putative PBP binding loops; other site 634452002506 ABC-ATPase subunit interface; other site 634452002507 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 634452002508 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 634452002509 Walker A/P-loop; other site 634452002510 ATP binding site [chemical binding]; other site 634452002511 Q-loop/lid; other site 634452002512 ABC transporter signature motif; other site 634452002513 Walker B; other site 634452002514 D-loop; other site 634452002515 H-loop/switch region; other site 634452002516 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 634452002517 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 634452002518 Protein export membrane protein; Region: SecD_SecF; cl14618 634452002519 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 634452002520 Protein export membrane protein; Region: SecD_SecF; cl14618 634452002521 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 634452002522 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634452002523 HlyD family secretion protein; Region: HlyD_3; pfam13437 634452002524 putative transporter; Provisional; Region: PRK10504 634452002525 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 634452002526 putative substrate translocation pore; other site 634452002527 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 634452002528 CsbD-like; Region: CsbD; pfam05532 634452002529 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 634452002530 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 634452002531 RNA/DNA hybrid binding site [nucleotide binding]; other site 634452002532 active site 634452002533 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 634452002534 DNA methylase; Region: N6_N4_Mtase; pfam01555 634452002535 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 634452002536 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 634452002537 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 634452002538 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 634452002539 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 634452002540 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 634452002541 Protein of unknown function DUF58; Region: DUF58; pfam01882 634452002542 MoxR-like ATPases [General function prediction only]; Region: COG0714 634452002543 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 634452002544 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 634452002545 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 634452002546 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 634452002547 active site 634452002548 NTP binding site [chemical binding]; other site 634452002549 metal binding triad [ion binding]; metal-binding site 634452002550 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 634452002551 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 634452002552 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634452002553 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452002554 Walker A/P-loop; other site 634452002555 ATP binding site [chemical binding]; other site 634452002556 Q-loop/lid; other site 634452002557 ABC transporter signature motif; other site 634452002558 Walker B; other site 634452002559 D-loop; other site 634452002560 H-loop/switch region; other site 634452002561 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 634452002562 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 634452002563 E3 interaction surface; other site 634452002564 lipoyl attachment site [posttranslational modification]; other site 634452002565 HlyD family secretion protein; Region: HlyD_3; pfam13437 634452002566 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 634452002567 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 634452002568 putative substrate translocation pore; other site 634452002569 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 634452002570 putative active site [active] 634452002571 Ap4A binding site [chemical binding]; other site 634452002572 nudix motif; other site 634452002573 putative metal binding site [ion binding]; other site 634452002574 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 634452002575 NodB motif; other site 634452002576 putative active site [active] 634452002577 putative catalytic site [active] 634452002578 Zn binding site [ion binding]; other site 634452002579 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 634452002580 C-terminal peptidase (prc); Region: prc; TIGR00225 634452002581 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 634452002582 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 634452002583 Catalytic dyad [active] 634452002584 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 634452002585 Peptidase family M23; Region: Peptidase_M23; pfam01551 634452002586 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 634452002587 phosphoglyceromutase; Provisional; Region: PRK05434 634452002588 threonine dehydratase; Provisional; Region: PRK07334 634452002589 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 634452002590 tetramer interface [polypeptide binding]; other site 634452002591 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452002592 catalytic residue [active] 634452002593 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 634452002594 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 634452002595 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 634452002596 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 634452002597 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 634452002598 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 634452002599 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 634452002600 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 634452002601 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 634452002602 ATP-grasp domain; Region: ATP-grasp_4; cl17255 634452002603 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 634452002604 IMP binding site; other site 634452002605 dimer interface [polypeptide binding]; other site 634452002606 partial ornithine binding site; other site 634452002607 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 634452002608 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 634452002609 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 634452002610 catalytic site [active] 634452002611 subunit interface [polypeptide binding]; other site 634452002612 Yqey-like protein; Region: YqeY; pfam09424 634452002613 DNA primase; Validated; Region: dnaG; PRK05667 634452002614 CHC2 zinc finger; Region: zf-CHC2; pfam01807 634452002615 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 634452002616 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 634452002617 active site 634452002618 metal binding site [ion binding]; metal-binding site 634452002619 interdomain interaction site; other site 634452002620 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 634452002621 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 634452002622 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 634452002623 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 634452002624 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634452002625 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 634452002626 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 634452002627 DNA binding residues [nucleotide binding] 634452002628 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 634452002629 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 634452002630 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 634452002631 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 634452002632 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 634452002633 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 634452002634 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 634452002635 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 634452002636 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 634452002637 S-adenosylmethionine binding site [chemical binding]; other site 634452002638 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 634452002639 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 634452002640 SurA N-terminal domain; Region: SurA_N; pfam09312 634452002641 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 634452002642 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 634452002643 OstA-like protein; Region: OstA; cl00844 634452002644 Organic solvent tolerance protein; Region: OstA_C; pfam04453 634452002645 Predicted permeases [General function prediction only]; Region: COG0795 634452002646 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 634452002647 Predicted permeases [General function prediction only]; Region: COG0795 634452002648 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 634452002649 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 634452002650 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 634452002651 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452002652 Walker A/P-loop; other site 634452002653 ATP binding site [chemical binding]; other site 634452002654 Q-loop/lid; other site 634452002655 ABC transporter signature motif; other site 634452002656 Walker B; other site 634452002657 D-loop; other site 634452002658 H-loop/switch region; other site 634452002659 Transcriptional regulators [Transcription]; Region: GntR; COG1802 634452002660 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 634452002661 DNA-binding site [nucleotide binding]; DNA binding site 634452002662 FCD domain; Region: FCD; pfam07729 634452002663 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 634452002664 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 634452002665 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 634452002666 Switch I; other site 634452002667 Switch II; other site 634452002668 septum formation inhibitor; Reviewed; Region: minC; PRK05177 634452002669 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 634452002670 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 634452002671 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 634452002672 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 634452002673 C-terminal domain interface [polypeptide binding]; other site 634452002674 GSH binding site (G-site) [chemical binding]; other site 634452002675 dimer interface [polypeptide binding]; other site 634452002676 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 634452002677 N-terminal domain interface [polypeptide binding]; other site 634452002678 dimer interface [polypeptide binding]; other site 634452002679 substrate binding pocket (H-site) [chemical binding]; other site 634452002680 Predicted flavoproteins [General function prediction only]; Region: COG2081 634452002681 Predicted methyltransferases [General function prediction only]; Region: COG0313 634452002682 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 634452002683 putative SAM binding site [chemical binding]; other site 634452002684 putative homodimer interface [polypeptide binding]; other site 634452002685 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 634452002686 putative ligand binding site [chemical binding]; other site 634452002687 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 634452002688 TPR motif; other site 634452002689 TPR repeat; Region: TPR_11; pfam13414 634452002690 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 634452002691 TPR motif; other site 634452002692 binding surface 634452002693 TPR repeat; Region: TPR_11; pfam13414 634452002694 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 634452002695 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 634452002696 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 634452002697 S-formylglutathione hydrolase; Region: PLN02442 634452002698 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 634452002699 putative active site [active] 634452002700 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 634452002701 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 634452002702 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 634452002703 Walker A/P-loop; other site 634452002704 ATP binding site [chemical binding]; other site 634452002705 Q-loop/lid; other site 634452002706 ABC transporter signature motif; other site 634452002707 Walker B; other site 634452002708 D-loop; other site 634452002709 H-loop/switch region; other site 634452002710 zinc-ribbon domain; Region: zinc_ribbon_4; pfam13717 634452002711 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 634452002712 active site 634452002713 phosphorylation site [posttranslational modification] 634452002714 intermolecular recognition site; other site 634452002715 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 634452002716 active site 634452002717 phosphorylation site [posttranslational modification] 634452002718 intermolecular recognition site; other site 634452002719 dimerization interface [polypeptide binding]; other site 634452002720 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 634452002721 dimer interface [polypeptide binding]; other site 634452002722 phosphorylation site [posttranslational modification] 634452002723 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 634452002724 ATP binding site [chemical binding]; other site 634452002725 Mg2+ binding site [ion binding]; other site 634452002726 G-X-G motif; other site 634452002727 Response regulator receiver domain; Region: Response_reg; pfam00072 634452002728 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 634452002729 active site 634452002730 phosphorylation site [posttranslational modification] 634452002731 intermolecular recognition site; other site 634452002732 dimerization interface [polypeptide binding]; other site 634452002733 PAS fold; Region: PAS_4; pfam08448 634452002734 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 634452002735 dimer interface [polypeptide binding]; other site 634452002736 phosphorylation site [posttranslational modification] 634452002737 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 634452002738 ATP binding site [chemical binding]; other site 634452002739 Mg2+ binding site [ion binding]; other site 634452002740 G-X-G motif; other site 634452002741 Response regulator receiver domain; Region: Response_reg; pfam00072 634452002742 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 634452002743 active site 634452002744 phosphorylation site [posttranslational modification] 634452002745 intermolecular recognition site; other site 634452002746 dimerization interface [polypeptide binding]; other site 634452002747 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 634452002748 active site 634452002749 HslU subunit interaction site [polypeptide binding]; other site 634452002750 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 634452002751 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 634452002752 Walker A motif; other site 634452002753 ATP binding site [chemical binding]; other site 634452002754 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 634452002755 Walker B motif; other site 634452002756 arginine finger; other site 634452002757 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 634452002758 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 634452002759 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 634452002760 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 634452002761 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634452002762 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634452002763 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 634452002764 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 634452002765 catalytic loop [active] 634452002766 iron binding site [ion binding]; other site 634452002767 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 634452002768 Cytochrome c; Region: Cytochrom_C; pfam00034 634452002769 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634452002770 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634452002771 Cytochrome c; Region: Cytochrom_C; pfam00034 634452002772 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 634452002773 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 634452002774 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 634452002775 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 634452002776 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 634452002777 23S rRNA binding site [nucleotide binding]; other site 634452002778 L21 binding site [polypeptide binding]; other site 634452002779 L13 binding site [polypeptide binding]; other site 634452002780 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 634452002781 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 634452002782 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 634452002783 dimer interface [polypeptide binding]; other site 634452002784 motif 1; other site 634452002785 active site 634452002786 motif 2; other site 634452002787 motif 3; other site 634452002788 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 634452002789 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 634452002790 putative tRNA-binding site [nucleotide binding]; other site 634452002791 B3/4 domain; Region: B3_4; pfam03483 634452002792 tRNA synthetase B5 domain; Region: B5; smart00874 634452002793 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 634452002794 motif 1; other site 634452002795 dimer interface [polypeptide binding]; other site 634452002796 motif 3; other site 634452002797 motif 2; other site 634452002798 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 634452002799 PBP superfamily domain; Region: PBP_like_2; cl17296 634452002800 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 634452002801 peptide binding site [polypeptide binding]; other site 634452002802 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 634452002803 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 634452002804 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 634452002805 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 634452002806 ligand binding site [chemical binding]; other site 634452002807 flexible hinge region; other site 634452002808 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 634452002809 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 634452002810 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 634452002811 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 634452002812 RNA binding surface [nucleotide binding]; other site 634452002813 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 634452002814 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 634452002815 G1 box; other site 634452002816 putative GEF interaction site [polypeptide binding]; other site 634452002817 GTP/Mg2+ binding site [chemical binding]; other site 634452002818 Switch I region; other site 634452002819 G2 box; other site 634452002820 G3 box; other site 634452002821 Switch II region; other site 634452002822 G4 box; other site 634452002823 G5 box; other site 634452002824 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 634452002825 hypothetical protein; Provisional; Region: PRK08999 634452002826 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 634452002827 tartrate dehydrogenase; Region: TTC; TIGR02089 634452002828 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 634452002829 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 634452002830 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 634452002831 active site 634452002832 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 634452002833 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 634452002834 S-adenosylmethionine binding site [chemical binding]; other site 634452002835 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 634452002836 Part of AAA domain; Region: AAA_19; pfam13245 634452002837 Family description; Region: UvrD_C_2; pfam13538 634452002838 DNA repair protein radc; Region: radc; TIGR00608 634452002839 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 634452002840 DNA repair protein radc; Region: radc; TIGR00608 634452002841 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 634452002842 MPN+ (JAMM) motif; other site 634452002843 Zinc-binding site [ion binding]; other site 634452002844 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 634452002845 ATP-grasp domain; Region: ATP-grasp; pfam02222 634452002846 AIR carboxylase; Region: AIRC; pfam00731 634452002847 Protein of unknown function (DUF465); Region: DUF465; cl01070 634452002848 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 634452002849 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 634452002850 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 634452002851 putative dimer interface [polypeptide binding]; other site 634452002852 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 634452002853 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 634452002854 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 634452002855 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 634452002856 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 634452002857 Protein export membrane protein; Region: SecD_SecF; pfam02355 634452002858 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 634452002859 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 634452002860 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 634452002861 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 634452002862 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 634452002863 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 634452002864 Class I ribonucleotide reductase; Region: RNR_I; cd01679 634452002865 active site 634452002866 dimer interface [polypeptide binding]; other site 634452002867 catalytic residues [active] 634452002868 effector binding site; other site 634452002869 R2 peptide binding site; other site 634452002870 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 634452002871 dimer interface [polypeptide binding]; other site 634452002872 putative radical transfer pathway; other site 634452002873 diiron center [ion binding]; other site 634452002874 tyrosyl radical; other site 634452002875 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 634452002876 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 634452002877 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 634452002878 substrate binding pocket [chemical binding]; other site 634452002879 chain length determination region; other site 634452002880 substrate-Mg2+ binding site; other site 634452002881 catalytic residues [active] 634452002882 aspartate-rich region 1; other site 634452002883 active site lid residues [active] 634452002884 aspartate-rich region 2; other site 634452002885 glutamate racemase; Provisional; Region: PRK00865 634452002886 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634452002887 active site 634452002888 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 634452002889 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 634452002890 dimer interface [polypeptide binding]; other site 634452002891 active site 634452002892 citrylCoA binding site [chemical binding]; other site 634452002893 NADH binding [chemical binding]; other site 634452002894 cationic pore residues; other site 634452002895 oxalacetate/citrate binding site [chemical binding]; other site 634452002896 coenzyme A binding site [chemical binding]; other site 634452002897 catalytic triad [active] 634452002898 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 634452002899 catalytic core [active] 634452002900 chorismate mutase; Provisional; Region: PRK09239 634452002901 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 634452002902 active site 634452002903 metal binding site [ion binding]; metal-binding site 634452002904 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 634452002905 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 634452002906 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 634452002907 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 634452002908 AAA domain; Region: AAA_23; pfam13476 634452002909 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 634452002910 Walker A/P-loop; other site 634452002911 ATP binding site [chemical binding]; other site 634452002912 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 634452002913 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 634452002914 ABC transporter signature motif; other site 634452002915 Walker B; other site 634452002916 D-loop; other site 634452002917 H-loop/switch region; other site 634452002918 Thioredoxin; Region: Thioredoxin_4; pfam13462 634452002919 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 634452002920 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 634452002921 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 634452002922 Transporter associated domain; Region: CorC_HlyC; smart01091 634452002923 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 634452002924 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 634452002925 PhoH-like protein; Region: PhoH; pfam02562 634452002926 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 634452002927 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 634452002928 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 634452002929 FeS/SAM binding site; other site 634452002930 TRAM domain; Region: TRAM; cl01282 634452002931 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 634452002932 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 634452002933 putative acyl-acceptor binding pocket; other site 634452002934 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 634452002935 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634452002936 Surface antigen; Region: Bac_surface_Ag; pfam01103 634452002937 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 634452002938 Family of unknown function (DUF490); Region: DUF490; pfam04357 634452002939 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 634452002940 putative catalytic site [active] 634452002941 putative phosphate binding site [ion binding]; other site 634452002942 active site 634452002943 metal binding site A [ion binding]; metal-binding site 634452002944 DNA binding site [nucleotide binding] 634452002945 putative AP binding site [nucleotide binding]; other site 634452002946 putative metal binding site B [ion binding]; other site 634452002947 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 634452002948 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 634452002949 active site 634452002950 dimer interface [polypeptide binding]; other site 634452002951 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 634452002952 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 634452002953 GIY-YIG motif/motif A; other site 634452002954 active site 634452002955 catalytic site [active] 634452002956 putative DNA binding site [nucleotide binding]; other site 634452002957 metal binding site [ion binding]; metal-binding site 634452002958 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 634452002959 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 634452002960 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 634452002961 MoaE interaction surface [polypeptide binding]; other site 634452002962 MoeB interaction surface [polypeptide binding]; other site 634452002963 thiocarboxylated glycine; other site 634452002964 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 634452002965 MoaE homodimer interface [polypeptide binding]; other site 634452002966 MoaD interaction [polypeptide binding]; other site 634452002967 active site residues [active] 634452002968 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 634452002969 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 634452002970 inhibitor-cofactor binding pocket; inhibition site 634452002971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452002972 catalytic residue [active] 634452002973 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 634452002974 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 634452002975 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634452002976 catalytic residue [active] 634452002977 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 634452002978 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 634452002979 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 634452002980 S-adenosylmethionine binding site [chemical binding]; other site 634452002981 AAA domain; Region: AAA_26; pfam13500 634452002982 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 634452002983 LexA repressor; Validated; Region: PRK00215 634452002984 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 634452002985 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 634452002986 Catalytic site [active] 634452002987 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 634452002988 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 634452002989 dimer interface [polypeptide binding]; other site 634452002990 putative functional site; other site 634452002991 putative MPT binding site; other site 634452002992 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 634452002993 Septum formation initiator; Region: DivIC; cl17659 634452002994 enolase; Provisional; Region: eno; PRK00077 634452002995 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 634452002996 dimer interface [polypeptide binding]; other site 634452002997 metal binding site [ion binding]; metal-binding site 634452002998 substrate binding pocket [chemical binding]; other site 634452002999 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 634452003000 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 634452003001 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 634452003002 thiS-thiF/thiG interaction site; other site 634452003003 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 634452003004 ThiS interaction site; other site 634452003005 putative active site [active] 634452003006 tetramer interface [polypeptide binding]; other site 634452003007 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 634452003008 thiamine phosphate binding site [chemical binding]; other site 634452003009 active site 634452003010 pyrophosphate binding site [ion binding]; other site 634452003011 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 634452003012 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 634452003013 generic binding surface II; other site 634452003014 ssDNA binding site; other site 634452003015 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 634452003016 ATP binding site [chemical binding]; other site 634452003017 putative Mg++ binding site [ion binding]; other site 634452003018 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 634452003019 nucleotide binding region [chemical binding]; other site 634452003020 ATP-binding site [chemical binding]; other site 634452003021 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 634452003022 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 634452003023 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 634452003024 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 634452003025 ATP binding site [chemical binding]; other site 634452003026 putative Mg++ binding site [ion binding]; other site 634452003027 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 634452003028 nucleotide binding region [chemical binding]; other site 634452003029 ATP-binding site [chemical binding]; other site 634452003030 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 634452003031 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 634452003032 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 634452003033 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 634452003034 tyrosine decarboxylase; Region: PLN02880 634452003035 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 634452003036 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452003037 catalytic residue [active] 634452003038 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 634452003039 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 634452003040 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 634452003041 metal ion-dependent adhesion site (MIDAS); other site 634452003042 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 634452003043 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 634452003044 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 634452003045 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 634452003046 HSP70 interaction site [polypeptide binding]; other site 634452003047 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 634452003048 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 634452003049 lipoate-protein ligase B; Provisional; Region: PRK14341 634452003050 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 634452003051 active site 634452003052 tetramer interface; other site 634452003053 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 634452003054 active site 634452003055 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 634452003056 substrate binding site [chemical binding]; other site 634452003057 metal binding site [ion binding]; metal-binding site 634452003058 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 634452003059 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 634452003060 FeS/SAM binding site; other site 634452003061 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 634452003062 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 634452003063 S-adenosylmethionine binding site [chemical binding]; other site 634452003064 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 634452003065 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634452003066 active site 634452003067 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 634452003068 GSH binding site [chemical binding]; other site 634452003069 catalytic residues [active] 634452003070 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 634452003071 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 634452003072 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 634452003073 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 634452003074 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 634452003075 S-adenosylmethionine binding site [chemical binding]; other site 634452003076 aspartate kinase; Reviewed; Region: PRK06635 634452003077 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 634452003078 putative nucleotide binding site [chemical binding]; other site 634452003079 putative catalytic residues [active] 634452003080 putative Mg ion binding site [ion binding]; other site 634452003081 putative aspartate binding site [chemical binding]; other site 634452003082 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 634452003083 putative allosteric regulatory site; other site 634452003084 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 634452003085 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 634452003086 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 634452003087 FMN binding site [chemical binding]; other site 634452003088 substrate binding site [chemical binding]; other site 634452003089 putative catalytic residue [active] 634452003090 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 634452003091 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 634452003092 non-specific DNA binding site [nucleotide binding]; other site 634452003093 salt bridge; other site 634452003094 sequence-specific DNA binding site [nucleotide binding]; other site 634452003095 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 634452003096 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 634452003097 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 634452003098 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 634452003099 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 634452003100 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 634452003101 dimer interface [polypeptide binding]; other site 634452003102 motif 1; other site 634452003103 active site 634452003104 motif 2; other site 634452003105 motif 3; other site 634452003106 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 634452003107 anticodon binding site; other site 634452003108 peptide chain release factor 1; Validated; Region: prfA; PRK00591 634452003109 PCRF domain; Region: PCRF; pfam03462 634452003110 RF-1 domain; Region: RF-1; pfam00472 634452003111 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 634452003112 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 634452003113 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 634452003114 mce related protein; Region: MCE; pfam02470 634452003115 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 634452003116 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 634452003117 ATP-grasp domain; Region: ATP-grasp_4; cl17255 634452003118 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 634452003119 Transglycosylase SLT domain; Region: SLT_2; pfam13406 634452003120 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 634452003121 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634452003122 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 634452003123 Sporulation related domain; Region: SPOR; cl10051 634452003124 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 634452003125 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 634452003126 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 634452003127 thymidylate kinase; Validated; Region: tmk; PRK00698 634452003128 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 634452003129 TMP-binding site; other site 634452003130 ATP-binding site [chemical binding]; other site 634452003131 DNA polymerase III subunit delta'; Validated; Region: PRK07471 634452003132 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 634452003133 Walker A motif; other site 634452003134 ATP binding site [chemical binding]; other site 634452003135 Walker B motif; other site 634452003136 arginine finger; other site 634452003137 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 634452003138 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 634452003139 active site 634452003140 HIGH motif; other site 634452003141 KMSKS motif; other site 634452003142 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 634452003143 tRNA binding surface [nucleotide binding]; other site 634452003144 anticodon binding site; other site 634452003145 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 634452003146 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 634452003147 active site 634452003148 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 634452003149 putative hydrolase; Provisional; Region: PRK02113 634452003150 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 634452003151 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 634452003152 Ligand Binding Site [chemical binding]; other site 634452003153 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 634452003154 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 634452003155 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 634452003156 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 634452003157 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 634452003158 NAD binding site [chemical binding]; other site 634452003159 homotetramer interface [polypeptide binding]; other site 634452003160 homodimer interface [polypeptide binding]; other site 634452003161 substrate binding site [chemical binding]; other site 634452003162 active site 634452003163 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 634452003164 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 634452003165 Tetramer interface [polypeptide binding]; other site 634452003166 active site 634452003167 FMN-binding site [chemical binding]; other site 634452003168 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 634452003169 malate:quinone oxidoreductase; Validated; Region: PRK05257 634452003170 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 634452003171 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 634452003172 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 634452003173 Ligand Binding Site [chemical binding]; other site 634452003174 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 634452003175 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 634452003176 biotin synthase; Region: bioB; TIGR00433 634452003177 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 634452003178 FeS/SAM binding site; other site 634452003179 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 634452003180 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 634452003181 Domain of unknown function (DUF333); Region: DUF333; pfam03891 634452003182 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 634452003183 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 634452003184 Active Sites [active] 634452003185 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 634452003186 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 634452003187 Active Sites [active] 634452003188 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 634452003189 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 634452003190 G1 box; other site 634452003191 GTP/Mg2+ binding site [chemical binding]; other site 634452003192 G2 box; other site 634452003193 Switch I region; other site 634452003194 G3 box; other site 634452003195 Switch II region; other site 634452003196 G4 box; other site 634452003197 G5 box; other site 634452003198 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 634452003199 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 634452003200 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 634452003201 ligand-binding site [chemical binding]; other site 634452003202 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 634452003203 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 634452003204 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 634452003205 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 634452003206 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 634452003207 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 634452003208 putative acyl-acceptor binding pocket; other site 634452003209 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 634452003210 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 634452003211 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 634452003212 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 634452003213 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 634452003214 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 634452003215 putative acyl-acceptor binding pocket; other site 634452003216 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 634452003217 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 634452003218 active site 634452003219 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 634452003220 putative amphipathic alpha helix; other site 634452003221 YceG-like family; Region: YceG; pfam02618 634452003222 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 634452003223 dimerization interface [polypeptide binding]; other site 634452003224 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 634452003225 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 634452003226 dimer interface [polypeptide binding]; other site 634452003227 active site 634452003228 acyl carrier protein; Provisional; Region: acpP; PRK00982 634452003229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634452003230 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 634452003231 NAD(P) binding site [chemical binding]; other site 634452003232 active site 634452003233 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 634452003234 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 634452003235 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 634452003236 putative active site [active] 634452003237 Methyltransferase domain; Region: Methyltransf_31; pfam13847 634452003238 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 634452003239 S-adenosylmethionine binding site [chemical binding]; other site 634452003240 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 634452003241 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 634452003242 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634452003243 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 634452003244 catalytic residues [active] 634452003245 catalytic nucleophile [active] 634452003246 Presynaptic Site I dimer interface [polypeptide binding]; other site 634452003247 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634452003248 Synaptic Flat tetramer interface [polypeptide binding]; other site 634452003249 Synaptic Site I dimer interface [polypeptide binding]; other site 634452003250 DNA binding site [nucleotide binding] 634452003251 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 634452003252 DNA-binding interface [nucleotide binding]; DNA binding site 634452003253 Winged helix-turn helix; Region: HTH_29; pfam13551 634452003254 Helix-turn-helix domain; Region: HTH_28; pfam13518 634452003255 Homeodomain-like domain; Region: HTH_32; pfam13565 634452003256 Integrase core domain; Region: rve; pfam00665 634452003257 Integrase core domain; Region: rve_3; cl15866 634452003258 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 634452003259 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 634452003260 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 634452003261 DNA-binding site [nucleotide binding]; DNA binding site 634452003262 RNA-binding motif; other site 634452003263 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 634452003264 DNA-binding site [nucleotide binding]; DNA binding site 634452003265 RNA-binding motif; other site 634452003266 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 634452003267 SmpB-tmRNA interface; other site 634452003268 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 634452003269 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 634452003270 dimer interface [polypeptide binding]; other site 634452003271 active site 634452003272 catalytic residue [active] 634452003273 prephenate dehydratase; Provisional; Region: PRK11899 634452003274 Prephenate dehydratase; Region: PDT; pfam00800 634452003275 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 634452003276 putative L-Phe binding site [chemical binding]; other site 634452003277 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 634452003278 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 634452003279 Ligand binding site; other site 634452003280 oligomer interface; other site 634452003281 Cytochrome c; Region: Cytochrom_C; cl11414 634452003282 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 634452003283 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 634452003284 active site 634452003285 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 634452003286 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 634452003287 ligand binding site [chemical binding]; other site 634452003288 NAD binding site [chemical binding]; other site 634452003289 tetramer interface [polypeptide binding]; other site 634452003290 catalytic site [active] 634452003291 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 634452003292 L-serine binding site [chemical binding]; other site 634452003293 ACT domain interface; other site 634452003294 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 634452003295 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 634452003296 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 634452003297 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 634452003298 cystathionine beta-lyase; Provisional; Region: PRK05967 634452003299 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 634452003300 homodimer interface [polypeptide binding]; other site 634452003301 substrate-cofactor binding pocket; other site 634452003302 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452003303 catalytic residue [active] 634452003304 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 634452003305 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 634452003306 active site residue [active] 634452003307 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 634452003308 active site residue [active] 634452003309 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 634452003310 Domain of unknown function DUF20; Region: UPF0118; pfam01594 634452003311 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 634452003312 putative catalytic site [active] 634452003313 putative metal binding site [ion binding]; other site 634452003314 putative phosphate binding site [ion binding]; other site 634452003315 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 634452003316 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 634452003317 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 634452003318 putative active site [active] 634452003319 catalytic site [active] 634452003320 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 634452003321 putative active site [active] 634452003322 catalytic site [active] 634452003323 hypothetical protein; Reviewed; Region: PRK12497 634452003324 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 634452003325 putative GSH binding site [chemical binding]; other site 634452003326 catalytic residues [active] 634452003327 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 634452003328 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 634452003329 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 634452003330 dimerization interface [polypeptide binding]; other site 634452003331 ATP binding site [chemical binding]; other site 634452003332 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 634452003333 dimerization interface [polypeptide binding]; other site 634452003334 ATP binding site [chemical binding]; other site 634452003335 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 634452003336 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 634452003337 putative active site [active] 634452003338 catalytic triad [active] 634452003339 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 634452003340 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 634452003341 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 634452003342 ATP binding site [chemical binding]; other site 634452003343 active site 634452003344 substrate binding site [chemical binding]; other site 634452003345 adenylosuccinate lyase; Provisional; Region: PRK07492 634452003346 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 634452003347 tetramer interface [polypeptide binding]; other site 634452003348 active site 634452003349 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 634452003350 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 634452003351 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 634452003352 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 634452003353 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634452003354 catalytic residue [active] 634452003355 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 634452003356 tetramer interfaces [polypeptide binding]; other site 634452003357 binuclear metal-binding site [ion binding]; other site 634452003358 Competence-damaged protein; Region: CinA; pfam02464 634452003359 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 634452003360 putative coenzyme Q binding site [chemical binding]; other site 634452003361 lipoyl synthase; Provisional; Region: PRK05481 634452003362 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 634452003363 FeS/SAM binding site; other site 634452003364 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 634452003365 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634452003366 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 634452003367 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 634452003368 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 634452003369 E3 interaction surface; other site 634452003370 lipoyl attachment site [posttranslational modification]; other site 634452003371 e3 binding domain; Region: E3_binding; pfam02817 634452003372 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 634452003373 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 634452003374 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 634452003375 E3 interaction surface; other site 634452003376 lipoyl attachment site [posttranslational modification]; other site 634452003377 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 634452003378 alpha subunit interface [polypeptide binding]; other site 634452003379 TPP binding site [chemical binding]; other site 634452003380 heterodimer interface [polypeptide binding]; other site 634452003381 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634452003382 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 634452003383 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 634452003384 tetramer interface [polypeptide binding]; other site 634452003385 TPP-binding site [chemical binding]; other site 634452003386 heterodimer interface [polypeptide binding]; other site 634452003387 phosphorylation loop region [posttranslational modification] 634452003388 molybdenum cofactor biosynthesis protein MoaC; Provisional; Region: moaC; PRK09364 634452003389 trimer interface [polypeptide binding]; other site 634452003390 dimer interface [polypeptide binding]; other site 634452003391 putative active site [active] 634452003392 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 634452003393 active site 634452003394 ribulose/triose binding site [chemical binding]; other site 634452003395 phosphate binding site [ion binding]; other site 634452003396 substrate (anthranilate) binding pocket [chemical binding]; other site 634452003397 product (indole) binding pocket [chemical binding]; other site 634452003398 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 634452003399 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 634452003400 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 634452003401 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 634452003402 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 634452003403 glutamine binding [chemical binding]; other site 634452003404 catalytic triad [active] 634452003405 anthranilate synthase component I; Provisional; Region: PRK13573 634452003406 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 634452003407 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 634452003408 SurA N-terminal domain; Region: SurA_N_3; cl07813 634452003409 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 634452003410 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 634452003411 triosephosphate isomerase; Provisional; Region: PRK14565 634452003412 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 634452003413 substrate binding site [chemical binding]; other site 634452003414 dimer interface [polypeptide binding]; other site 634452003415 catalytic triad [active] 634452003416 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 634452003417 CTP synthetase; Validated; Region: pyrG; PRK05380 634452003418 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 634452003419 Catalytic site [active] 634452003420 active site 634452003421 UTP binding site [chemical binding]; other site 634452003422 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 634452003423 active site 634452003424 putative oxyanion hole; other site 634452003425 catalytic triad [active] 634452003426 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 634452003427 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 634452003428 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 634452003429 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 634452003430 ATP binding site [chemical binding]; other site 634452003431 Mg2+ binding site [ion binding]; other site 634452003432 G-X-G motif; other site 634452003433 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 634452003434 anchoring element; other site 634452003435 dimer interface [polypeptide binding]; other site 634452003436 ATP binding site [chemical binding]; other site 634452003437 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 634452003438 active site 634452003439 putative metal-binding site [ion binding]; other site 634452003440 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 634452003441 recombination protein F; Reviewed; Region: recF; PRK00064 634452003442 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452003443 Walker A/P-loop; other site 634452003444 ATP binding site [chemical binding]; other site 634452003445 Q-loop/lid; other site 634452003446 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452003447 ABC transporter signature motif; other site 634452003448 Walker B; other site 634452003449 D-loop; other site 634452003450 H-loop/switch region; other site 634452003451 DNA polymerase III subunit beta; Validated; Region: PRK05643 634452003452 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 634452003453 putative DNA binding surface [nucleotide binding]; other site 634452003454 dimer interface [polypeptide binding]; other site 634452003455 beta-clamp/clamp loader binding surface; other site 634452003456 beta-clamp/translesion DNA polymerase binding surface; other site 634452003457 DnaA N-terminal domain; Region: DnaA_N; pfam11638 634452003458 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 634452003459 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 634452003460 Walker A motif; other site 634452003461 ATP binding site [chemical binding]; other site 634452003462 Walker B motif; other site 634452003463 arginine finger; other site 634452003464 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 634452003465 DnaA box-binding interface [nucleotide binding]; other site 634452003466 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 634452003467 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 634452003468 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 634452003469 DNA binding site [nucleotide binding] 634452003470 catalytic residue [active] 634452003471 H2TH interface [polypeptide binding]; other site 634452003472 putative catalytic residues [active] 634452003473 turnover-facilitating residue; other site 634452003474 intercalation triad [nucleotide binding]; other site 634452003475 8OG recognition residue [nucleotide binding]; other site 634452003476 putative reading head residues; other site 634452003477 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 634452003478 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 634452003479 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 634452003480 S-adenosylmethionine binding site [chemical binding]; other site 634452003481 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 634452003482 Flavoprotein; Region: Flavoprotein; pfam02441 634452003483 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 634452003484 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 634452003485 trimer interface [polypeptide binding]; other site 634452003486 active site 634452003487 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 634452003488 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 634452003489 dimer interface [polypeptide binding]; other site 634452003490 conserved gate region; other site 634452003491 putative PBP binding loops; other site 634452003492 ABC-ATPase subunit interface; other site 634452003493 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 634452003494 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 634452003495 Walker A/P-loop; other site 634452003496 ATP binding site [chemical binding]; other site 634452003497 Q-loop/lid; other site 634452003498 ABC transporter signature motif; other site 634452003499 Walker B; other site 634452003500 D-loop; other site 634452003501 H-loop/switch region; other site 634452003502 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 634452003503 methionine sulfoxide reductase A; Provisional; Region: PRK14054 634452003504 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 634452003505 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 634452003506 HIGH motif; other site 634452003507 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 634452003508 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 634452003509 active site 634452003510 KMSKS motif; other site 634452003511 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 634452003512 tRNA binding surface [nucleotide binding]; other site 634452003513 anticodon binding site; other site 634452003514 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 634452003515 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 634452003516 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 634452003517 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 634452003518 Hint domain; Region: Hint_2; pfam13403 634452003519 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 634452003520 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634452003521 NAD(P) binding site [chemical binding]; other site 634452003522 active site 634452003523 thiamine monophosphate kinase; Provisional; Region: PRK05731 634452003524 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 634452003525 ATP binding site [chemical binding]; other site 634452003526 dimerization interface [polypeptide binding]; other site 634452003527 transcription antitermination factor NusB; Region: nusB; TIGR01951 634452003528 putative RNA binding site [nucleotide binding]; other site 634452003529 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 634452003530 ATP cone domain; Region: ATP-cone; pfam03477 634452003531 Protein of unknown function (DUF461); Region: DUF461; pfam04314 634452003532 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 634452003533 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 634452003534 N- and C-terminal domain interface [polypeptide binding]; other site 634452003535 active site 634452003536 MgATP binding site [chemical binding]; other site 634452003537 catalytic site [active] 634452003538 metal binding site [ion binding]; metal-binding site 634452003539 glycerol binding site [chemical binding]; other site 634452003540 homotetramer interface [polypeptide binding]; other site 634452003541 homodimer interface [polypeptide binding]; other site 634452003542 FBP binding site [chemical binding]; other site 634452003543 protein IIAGlc interface [polypeptide binding]; other site 634452003544 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 634452003545 amphipathic channel; other site 634452003546 Asn-Pro-Ala signature motifs; other site 634452003547 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 634452003548 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 634452003549 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 634452003550 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 634452003551 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 634452003552 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 634452003553 ATP binding site [chemical binding]; other site 634452003554 putative Mg++ binding site [ion binding]; other site 634452003555 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 634452003556 nucleotide binding region [chemical binding]; other site 634452003557 ATP-binding site [chemical binding]; other site 634452003558 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 634452003559 HRDC domain; Region: HRDC; pfam00570 634452003560 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 634452003561 ligand binding site [chemical binding]; other site 634452003562 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 634452003563 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452003564 Walker A/P-loop; other site 634452003565 ATP binding site [chemical binding]; other site 634452003566 Q-loop/lid; other site 634452003567 ABC transporter signature motif; other site 634452003568 Walker B; other site 634452003569 D-loop; other site 634452003570 H-loop/switch region; other site 634452003571 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 634452003572 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452003573 Walker A/P-loop; other site 634452003574 ATP binding site [chemical binding]; other site 634452003575 Q-loop/lid; other site 634452003576 ABC transporter signature motif; other site 634452003577 Walker B; other site 634452003578 D-loop; other site 634452003579 H-loop/switch region; other site 634452003580 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 634452003581 Histidine kinase; Region: HisKA_2; pfam07568 634452003582 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 634452003583 ATP binding site [chemical binding]; other site 634452003584 Mg2+ binding site [ion binding]; other site 634452003585 G-X-G motif; other site 634452003586 RNA polymerase sigma factor; Provisional; Region: PRK12547 634452003587 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634452003588 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 634452003589 DNA binding residues [nucleotide binding] 634452003590 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634452003591 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 634452003592 DNA binding residues [nucleotide binding] 634452003593 two-component response regulator; Provisional; Region: PRK09191 634452003594 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 634452003595 active site 634452003596 phosphorylation site [posttranslational modification] 634452003597 intermolecular recognition site; other site 634452003598 dimerization interface [polypeptide binding]; other site 634452003599 ABC transporter ATPase component; Reviewed; Region: PRK11147 634452003600 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634452003601 ABC transporter; Region: ABC_tran_2; pfam12848 634452003602 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634452003603 trehalase; Provisional; Region: treF; PRK13270 634452003604 Trehalase; Region: Trehalase; cl17346 634452003605 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 634452003606 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 634452003607 substrate binding site [chemical binding]; other site 634452003608 catalytic Zn binding site [ion binding]; other site 634452003609 NAD binding site [chemical binding]; other site 634452003610 structural Zn binding site [ion binding]; other site 634452003611 dimer interface [polypeptide binding]; other site 634452003612 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 634452003613 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 634452003614 PhnA protein; Region: PhnA; pfam03831 634452003615 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 634452003616 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 634452003617 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 634452003618 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 634452003619 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 634452003620 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 634452003621 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 634452003622 amidohydrolase; Provisional; Region: PRK12393 634452003623 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 634452003624 active site 634452003625 putative substrate binding pocket [chemical binding]; other site 634452003626 NMT1/THI5 like; Region: NMT1; pfam09084 634452003627 Predicted small integral membrane protein (DUF2165); Region: DUF2165; pfam09933 634452003628 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 634452003629 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 634452003630 Walker A/P-loop; other site 634452003631 ATP binding site [chemical binding]; other site 634452003632 Q-loop/lid; other site 634452003633 ABC transporter signature motif; other site 634452003634 Walker B; other site 634452003635 D-loop; other site 634452003636 H-loop/switch region; other site 634452003637 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 634452003638 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 634452003639 dimer interface [polypeptide binding]; other site 634452003640 ABC-ATPase subunit interface; other site 634452003641 putative PBP binding loops; other site 634452003642 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 634452003643 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 634452003644 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 634452003645 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 634452003646 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 634452003647 active site 634452003648 putative substrate binding pocket [chemical binding]; other site 634452003649 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 634452003650 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 634452003651 allantoate amidohydrolase; Reviewed; Region: PRK09290 634452003652 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 634452003653 active site 634452003654 metal binding site [ion binding]; metal-binding site 634452003655 dimer interface [polypeptide binding]; other site 634452003656 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 634452003657 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634452003658 catalytic residue [active] 634452003659 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 634452003660 SnoaL-like domain; Region: SnoaL_3; pfam13474 634452003661 Protein of unknown function (DUF4089); Region: DUF4089; pfam13318 634452003662 amidase; Provisional; Region: PRK09201 634452003663 Amidase; Region: Amidase; pfam01425 634452003664 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 634452003665 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 634452003666 XdhC Rossmann domain; Region: XdhC_C; pfam13478 634452003667 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 634452003668 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 634452003669 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634452003670 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 634452003671 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 634452003672 catalytic loop [active] 634452003673 iron binding site [ion binding]; other site 634452003674 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 634452003675 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 634452003676 xanthine permease; Region: pbuX; TIGR03173 634452003677 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 634452003678 active site 634452003679 homotetramer interface [polypeptide binding]; other site 634452003680 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 634452003681 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 634452003682 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 634452003683 active site 634452003684 catalytic site [active] 634452003685 tetramer interface [polypeptide binding]; other site 634452003686 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 634452003687 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 634452003688 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452003689 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634452003690 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 634452003691 dimerization interface [polypeptide binding]; other site 634452003692 guanine deaminase; Provisional; Region: PRK09228 634452003693 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 634452003694 active site 634452003695 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 634452003696 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 634452003697 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634452003698 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 634452003699 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634452003700 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 634452003701 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 634452003702 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634452003703 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 634452003704 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 634452003705 HlyD family secretion protein; Region: HlyD_3; pfam13437 634452003706 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 634452003707 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 634452003708 Walker A/P-loop; other site 634452003709 ATP binding site [chemical binding]; other site 634452003710 Q-loop/lid; other site 634452003711 ABC transporter signature motif; other site 634452003712 Walker B; other site 634452003713 D-loop; other site 634452003714 H-loop/switch region; other site 634452003715 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452003716 Walker A/P-loop; other site 634452003717 ATP binding site [chemical binding]; other site 634452003718 Q-loop/lid; other site 634452003719 ABC transporter signature motif; other site 634452003720 Walker B; other site 634452003721 D-loop; other site 634452003722 H-loop/switch region; other site 634452003723 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 634452003724 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 634452003725 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 634452003726 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 634452003727 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 634452003728 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634452003729 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452003730 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 634452003731 putative dimerization interface [polypeptide binding]; other site 634452003732 Predicted membrane protein [Function unknown]; Region: COG2855 634452003733 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 634452003734 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 634452003735 Active site cavity [active] 634452003736 catalytic acid [active] 634452003737 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634452003738 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634452003739 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634452003740 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634452003741 WHG domain; Region: WHG; pfam13305 634452003742 Secretory lipase; Region: LIP; pfam03583 634452003743 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 634452003744 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634452003745 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 634452003746 NAD(P) binding site [chemical binding]; other site 634452003747 catalytic residues [active] 634452003748 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 634452003749 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 634452003750 FMN binding site [chemical binding]; other site 634452003751 active site 634452003752 substrate binding site [chemical binding]; other site 634452003753 catalytic residue [active] 634452003754 Predicted transcriptional regulators [Transcription]; Region: COG1733 634452003755 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 634452003756 hydroperoxidase II; Provisional; Region: katE; PRK11249 634452003757 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 634452003758 heme binding pocket [chemical binding]; other site 634452003759 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 634452003760 domain interactions; other site 634452003761 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 634452003762 hypothetical protein; Provisional; Region: PRK09256 634452003763 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 634452003764 Putative glucoamylase; Region: Glycoamylase; pfam10091 634452003765 Putative glucoamylase; Region: Glycoamylase; pfam10091 634452003766 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 634452003767 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 634452003768 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 634452003769 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 634452003770 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 634452003771 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 634452003772 active site 634452003773 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 634452003774 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634452003775 Coenzyme A binding pocket [chemical binding]; other site 634452003776 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 634452003777 dimer interface [polypeptide binding]; other site 634452003778 substrate binding site [chemical binding]; other site 634452003779 ATP binding site [chemical binding]; other site 634452003780 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 634452003781 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 634452003782 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 634452003783 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 634452003784 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 634452003785 Protein of unknown function DUF72; Region: DUF72; pfam01904 634452003786 Uncharacterized conserved protein [Function unknown]; Region: COG2135 634452003787 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 634452003788 putative chaperone; Provisional; Region: PRK11678 634452003789 nucleotide binding site [chemical binding]; other site 634452003790 putative NEF/HSP70 interaction site [polypeptide binding]; other site 634452003791 SBD interface [polypeptide binding]; other site 634452003792 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 634452003793 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 634452003794 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 634452003795 HlyD family secretion protein; Region: HlyD_3; pfam13437 634452003796 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 634452003797 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634452003798 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634452003799 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 634452003800 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 634452003801 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 634452003802 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 634452003803 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 634452003804 putative substrate translocation pore; other site 634452003805 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 634452003806 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 634452003807 active site 634452003808 hypothetical protein; Provisional; Region: PRK09945 634452003809 Hint domain; Region: Hint_2; pfam13403 634452003810 SnoaL-like domain; Region: SnoaL_2; pfam12680 634452003811 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 634452003812 Helix-turn-helix domain; Region: HTH_18; pfam12833 634452003813 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634452003814 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 634452003815 putative deacylase active site [active] 634452003816 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 634452003817 putative substrate translocation pore; other site 634452003818 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 634452003819 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 634452003820 metal binding site 2 [ion binding]; metal-binding site 634452003821 putative DNA binding helix; other site 634452003822 metal binding site 1 [ion binding]; metal-binding site 634452003823 dimer interface [polypeptide binding]; other site 634452003824 structural Zn2+ binding site [ion binding]; other site 634452003825 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 634452003826 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634452003827 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634452003828 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 634452003829 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 634452003830 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 634452003831 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634452003832 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452003833 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452003834 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 634452003835 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 634452003836 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 634452003837 ligand-binding site [chemical binding]; other site 634452003838 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452003839 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452003840 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 634452003841 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 634452003842 FecR protein; Region: FecR; pfam04773 634452003843 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634452003844 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 634452003845 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 634452003846 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 634452003847 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 634452003848 N-terminal plug; other site 634452003849 ligand-binding site [chemical binding]; other site 634452003850 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 634452003851 FecR protein; Region: FecR; pfam04773 634452003852 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452003853 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452003854 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 634452003855 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 634452003856 DNA binding residues [nucleotide binding] 634452003857 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 634452003858 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 634452003859 substrate binding pocket [chemical binding]; other site 634452003860 membrane-bound complex binding site; other site 634452003861 hinge residues; other site 634452003862 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 634452003863 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 634452003864 Walker A/P-loop; other site 634452003865 ATP binding site [chemical binding]; other site 634452003866 Q-loop/lid; other site 634452003867 ABC transporter signature motif; other site 634452003868 Walker B; other site 634452003869 D-loop; other site 634452003870 H-loop/switch region; other site 634452003871 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 634452003872 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 634452003873 dimer interface [polypeptide binding]; other site 634452003874 conserved gate region; other site 634452003875 putative PBP binding loops; other site 634452003876 ABC-ATPase subunit interface; other site 634452003877 Secretory lipase; Region: LIP; pfam03583 634452003878 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 634452003879 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 634452003880 active site 634452003881 iron coordination sites [ion binding]; other site 634452003882 substrate binding pocket [chemical binding]; other site 634452003883 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634452003884 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 634452003885 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634452003886 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452003887 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452003888 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634452003889 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 634452003890 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 634452003891 D-galactonate transporter; Region: 2A0114; TIGR00893 634452003892 putative substrate translocation pore; other site 634452003893 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 634452003894 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452003895 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 634452003896 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452003897 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 634452003898 putative substrate translocation pore; other site 634452003899 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 634452003900 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452003901 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 634452003902 putative dimerization interface [polypeptide binding]; other site 634452003903 putative substrate binding pocket [chemical binding]; other site 634452003904 dihydroxy-acid dehydratase; Provisional; Region: PRK13016 634452003905 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 634452003906 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 634452003907 Winged helix-turn helix; Region: HTH_29; pfam13551 634452003908 Integrase core domain; Region: rve; pfam00665 634452003909 Integrase core domain; Region: rve_3; pfam13683 634452003910 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 634452003911 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 634452003912 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634452003913 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452003914 LysR substrate binding domain; Region: LysR_substrate; pfam03466 634452003915 dimerization interface [polypeptide binding]; other site 634452003916 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 634452003917 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 634452003918 putative active site [active] 634452003919 metal binding site [ion binding]; metal-binding site 634452003920 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 634452003921 metabolite-proton symporter; Region: 2A0106; TIGR00883 634452003922 putative substrate translocation pore; other site 634452003923 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 634452003924 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 634452003925 tetrameric interface [polypeptide binding]; other site 634452003926 NAD binding site [chemical binding]; other site 634452003927 catalytic residues [active] 634452003928 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 634452003929 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 634452003930 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 634452003931 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 634452003932 dimer interface [polypeptide binding]; other site 634452003933 conserved gate region; other site 634452003934 putative PBP binding loops; other site 634452003935 ABC-ATPase subunit interface; other site 634452003936 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 634452003937 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 634452003938 Walker A/P-loop; other site 634452003939 ATP binding site [chemical binding]; other site 634452003940 Q-loop/lid; other site 634452003941 ABC transporter signature motif; other site 634452003942 Walker B; other site 634452003943 D-loop; other site 634452003944 H-loop/switch region; other site 634452003945 nickel responsive regulator; Provisional; Region: PRK04460 634452003946 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 634452003947 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 634452003948 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 634452003949 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 634452003950 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 634452003951 urea carboxylase; Region: urea_carbox; TIGR02712 634452003952 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 634452003953 ATP-grasp domain; Region: ATP-grasp_4; cl17255 634452003954 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 634452003955 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 634452003956 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 634452003957 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 634452003958 carboxyltransferase (CT) interaction site; other site 634452003959 biotinylation site [posttranslational modification]; other site 634452003960 allophanate hydrolase; Provisional; Region: PRK08186 634452003961 Amidase; Region: Amidase; cl11426 634452003962 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 634452003963 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 634452003964 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 634452003965 Part of AAA domain; Region: AAA_19; pfam13245 634452003966 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 634452003967 AAA domain; Region: AAA_30; pfam13604 634452003968 AAA domain; Region: AAA_12; pfam13087 634452003969 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 634452003970 putative active site [active] 634452003971 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 634452003972 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 634452003973 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 634452003974 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 634452003975 active site 634452003976 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 634452003977 ligand-binding site [chemical binding]; other site 634452003978 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452003979 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 634452003980 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 634452003981 heme ligand [chemical binding]; other site 634452003982 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634452003983 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634452003984 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 634452003985 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 634452003986 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 634452003987 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 634452003988 active site 634452003989 non-prolyl cis peptide bond; other site 634452003990 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634452003991 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 634452003992 Flavin Reductases; Region: FlaRed; cl00801 634452003993 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 634452003994 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 634452003995 putative substrate translocation pore; other site 634452003996 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 634452003997 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 634452003998 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 634452003999 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 634452004000 active site 634452004001 dimer interface [polypeptide binding]; other site 634452004002 non-prolyl cis peptide bond; other site 634452004003 insertion regions; other site 634452004004 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; cl00782 634452004005 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 634452004006 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 634452004007 active site 634452004008 non-prolyl cis peptide bond; other site 634452004009 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 634452004010 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 634452004011 active site 634452004012 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 634452004013 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 634452004014 putative FMN binding site [chemical binding]; other site 634452004015 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452004016 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452004017 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452004018 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634452004019 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634452004020 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 634452004021 DEAD-like helicases superfamily; Region: DEXDc; smart00487 634452004022 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 634452004023 ATP binding site [chemical binding]; other site 634452004024 putative Mg++ binding site [ion binding]; other site 634452004025 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452004026 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 634452004027 Protein of unknown function DUF45; Region: DUF45; pfam01863 634452004028 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 634452004029 DNA-binding interface [nucleotide binding]; DNA binding site 634452004030 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634452004031 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 634452004032 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 634452004033 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634452004034 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 634452004035 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 634452004036 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452004037 HTH-like domain; Region: HTH_21; pfam13276 634452004038 Integrase core domain; Region: rve; pfam00665 634452004039 Integrase core domain; Region: rve_3; pfam13683 634452004040 Transposase; Region: HTH_Tnp_1; pfam01527 634452004041 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452004042 Walker A/P-loop; other site 634452004043 ATP binding site [chemical binding]; other site 634452004044 Q-loop/lid; other site 634452004045 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452004046 ABC transporter signature motif; other site 634452004047 Walker B; other site 634452004048 D-loop; other site 634452004049 H-loop/switch region; other site 634452004050 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452004051 AAA domain; Region: AAA_21; pfam13304 634452004052 Walker A/P-loop; other site 634452004053 ATP binding site [chemical binding]; other site 634452004054 Q-loop/lid; other site 634452004055 ABC transporter signature motif; other site 634452004056 Walker B; other site 634452004057 D-loop; other site 634452004058 H-loop/switch region; other site 634452004059 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 634452004060 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 634452004061 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 634452004062 glutaredoxin 2; Provisional; Region: PRK10387 634452004063 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 634452004064 C-terminal domain interface [polypeptide binding]; other site 634452004065 GSH binding site (G-site) [chemical binding]; other site 634452004066 catalytic residues [active] 634452004067 putative dimer interface [polypeptide binding]; other site 634452004068 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 634452004069 N-terminal domain interface [polypeptide binding]; other site 634452004070 polyol permease family; Region: 2A0118; TIGR00897 634452004071 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 634452004072 putative substrate translocation pore; other site 634452004073 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 634452004074 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 634452004075 active site 634452004076 SAM binding site [chemical binding]; other site 634452004077 homodimer interface [polypeptide binding]; other site 634452004078 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 634452004079 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 634452004080 active site 634452004081 putative homodimer interface [polypeptide binding]; other site 634452004082 SAM binding site [chemical binding]; other site 634452004083 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 634452004084 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 634452004085 S-adenosylmethionine binding site [chemical binding]; other site 634452004086 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 634452004087 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 634452004088 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 634452004089 active site 634452004090 SAM binding site [chemical binding]; other site 634452004091 homodimer interface [polypeptide binding]; other site 634452004092 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 634452004093 active site 634452004094 SAM binding site [chemical binding]; other site 634452004095 homodimer interface [polypeptide binding]; other site 634452004096 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 634452004097 Precorrin-8X methylmutase; Region: CbiC; pfam02570 634452004098 precorrin-3B synthase; Region: CobG; TIGR02435 634452004099 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 634452004100 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 634452004101 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 634452004102 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 634452004103 fumarate hydratase; Reviewed; Region: fumC; PRK00485 634452004104 Class II fumarases; Region: Fumarase_classII; cd01362 634452004105 active site 634452004106 tetramer interface [polypeptide binding]; other site 634452004107 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 634452004108 GAF domain; Region: GAF; cl17456 634452004109 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 634452004110 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 634452004111 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 634452004112 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 634452004113 Trp docking motif [polypeptide binding]; other site 634452004114 putative active site [active] 634452004115 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 634452004116 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 634452004117 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 634452004118 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 634452004119 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 634452004120 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 634452004121 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 634452004122 Domain of unknown function DUF20; Region: UPF0118; pfam01594 634452004123 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 634452004124 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 634452004125 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 634452004126 propionate/acetate kinase; Provisional; Region: PRK12379 634452004127 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 634452004128 phosphate acetyltransferase; Provisional; Region: PRK11890 634452004129 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 634452004130 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 634452004131 phosphate binding site [ion binding]; other site 634452004132 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 634452004133 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 634452004134 dimer interface [polypeptide binding]; other site 634452004135 PYR/PP interface [polypeptide binding]; other site 634452004136 TPP binding site [chemical binding]; other site 634452004137 substrate binding site [chemical binding]; other site 634452004138 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 634452004139 Domain of unknown function; Region: EKR; pfam10371 634452004140 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 634452004141 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 634452004142 TPP-binding site [chemical binding]; other site 634452004143 dimer interface [polypeptide binding]; other site 634452004144 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 634452004145 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634452004146 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634452004147 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 634452004148 Ca2+ binding site [ion binding]; other site 634452004149 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634452004150 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634452004151 Predicted membrane protein [Function unknown]; Region: COG1971 634452004152 Domain of unknown function DUF; Region: DUF204; pfam02659 634452004153 Domain of unknown function DUF; Region: DUF204; pfam02659 634452004154 glutathionine S-transferase; Provisional; Region: PRK10542 634452004155 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 634452004156 C-terminal domain interface [polypeptide binding]; other site 634452004157 GSH binding site (G-site) [chemical binding]; other site 634452004158 dimer interface [polypeptide binding]; other site 634452004159 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 634452004160 dimer interface [polypeptide binding]; other site 634452004161 N-terminal domain interface [polypeptide binding]; other site 634452004162 substrate binding pocket (H-site) [chemical binding]; other site 634452004163 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 634452004164 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 634452004165 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 634452004166 GTP binding site; other site 634452004167 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 634452004168 Walker A motif; other site 634452004169 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 634452004170 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 634452004171 dimer interface [polypeptide binding]; other site 634452004172 putative functional site; other site 634452004173 putative MPT binding site; other site 634452004174 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 634452004175 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 634452004176 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 634452004177 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 634452004178 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 634452004179 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 634452004180 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 634452004181 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 634452004182 [4Fe-4S] binding site [ion binding]; other site 634452004183 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 634452004184 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 634452004185 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 634452004186 molybdopterin cofactor binding site; other site 634452004187 exopolyphosphatase; Region: exo_poly_only; TIGR03706 634452004188 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 634452004189 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 634452004190 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 634452004191 S-adenosylmethionine binding site [chemical binding]; other site 634452004192 fructokinase; Reviewed; Region: PRK09557 634452004193 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 634452004194 nucleotide binding site [chemical binding]; other site 634452004195 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 634452004196 CPxP motif; other site 634452004197 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 634452004198 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 634452004199 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 634452004200 substrate binding pocket [chemical binding]; other site 634452004201 chain length determination region; other site 634452004202 substrate-Mg2+ binding site; other site 634452004203 catalytic residues [active] 634452004204 aspartate-rich region 1; other site 634452004205 active site lid residues [active] 634452004206 aspartate-rich region 2; other site 634452004207 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 634452004208 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 634452004209 TPP-binding site; other site 634452004210 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 634452004211 PYR/PP interface [polypeptide binding]; other site 634452004212 dimer interface [polypeptide binding]; other site 634452004213 TPP binding site [chemical binding]; other site 634452004214 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634452004215 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 634452004216 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 634452004217 RNA binding surface [nucleotide binding]; other site 634452004218 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 634452004219 S-adenosylmethionine binding site [chemical binding]; other site 634452004220 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 634452004221 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 634452004222 FeS/SAM binding site; other site 634452004223 argininosuccinate synthase; Provisional; Region: PRK13820 634452004224 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 634452004225 ANP binding site [chemical binding]; other site 634452004226 Substrate Binding Site II [chemical binding]; other site 634452004227 Substrate Binding Site I [chemical binding]; other site 634452004228 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 634452004229 Cytochrome c; Region: Cytochrom_C; pfam00034 634452004230 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 634452004231 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 634452004232 active site 634452004233 HIGH motif; other site 634452004234 dimer interface [polypeptide binding]; other site 634452004235 KMSKS motif; other site 634452004236 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 634452004237 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634452004238 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 634452004239 active site 634452004240 phosphorylation site [posttranslational modification] 634452004241 intermolecular recognition site; other site 634452004242 dimerization interface [polypeptide binding]; other site 634452004243 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 634452004244 DNA binding site [nucleotide binding] 634452004245 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 634452004246 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 634452004247 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 634452004248 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 634452004249 S-adenosylmethionine binding site [chemical binding]; other site 634452004250 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 634452004251 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 634452004252 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 634452004253 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 634452004254 active site 634452004255 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 634452004256 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 634452004257 peptide binding site [polypeptide binding]; other site 634452004258 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 634452004259 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 634452004260 dimer interface [polypeptide binding]; other site 634452004261 conserved gate region; other site 634452004262 ABC-ATPase subunit interface; other site 634452004263 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 634452004264 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 634452004265 dimer interface [polypeptide binding]; other site 634452004266 conserved gate region; other site 634452004267 putative PBP binding loops; other site 634452004268 ABC-ATPase subunit interface; other site 634452004269 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 634452004270 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 634452004271 Walker A/P-loop; other site 634452004272 ATP binding site [chemical binding]; other site 634452004273 Q-loop/lid; other site 634452004274 ABC transporter signature motif; other site 634452004275 Walker B; other site 634452004276 D-loop; other site 634452004277 H-loop/switch region; other site 634452004278 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 634452004279 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 634452004280 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 634452004281 Walker A/P-loop; other site 634452004282 ATP binding site [chemical binding]; other site 634452004283 Q-loop/lid; other site 634452004284 ABC transporter signature motif; other site 634452004285 Walker B; other site 634452004286 D-loop; other site 634452004287 H-loop/switch region; other site 634452004288 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 634452004289 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 634452004290 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 634452004291 FMN binding site [chemical binding]; other site 634452004292 substrate binding site [chemical binding]; other site 634452004293 putative catalytic residue [active] 634452004294 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 634452004295 active site 634452004296 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 634452004297 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 634452004298 CAS motifs; other site 634452004299 active site 634452004300 Purine nucleoside permease (NUP); Region: NUP; pfam06516 634452004301 Phosphoesterase family; Region: Phosphoesterase; pfam04185 634452004302 Phosphoesterase family; Region: Phosphoesterase; pfam04185 634452004303 Domain of unknown function (DUF756); Region: DUF756; pfam05506 634452004304 Domain of unknown function (DUF756); Region: DUF756; pfam05506 634452004305 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634452004306 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 634452004307 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 634452004308 Tannase and feruloyl esterase; Region: Tannase; pfam07519 634452004309 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 634452004310 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 634452004311 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634452004312 putative substrate translocation pore; other site 634452004313 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 634452004314 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 634452004315 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 634452004316 FAD binding pocket [chemical binding]; other site 634452004317 FAD binding motif [chemical binding]; other site 634452004318 phosphate binding motif [ion binding]; other site 634452004319 NAD binding pocket [chemical binding]; other site 634452004320 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 634452004321 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 634452004322 S-adenosylmethionine binding site [chemical binding]; other site 634452004323 Predicted transcriptional regulators [Transcription]; Region: COG1695 634452004324 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 634452004325 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634452004326 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 634452004327 multidrug resistance protein MdtN; Provisional; Region: PRK10476 634452004328 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634452004329 HlyD family secretion protein; Region: HlyD_3; pfam13437 634452004330 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634452004331 Outer membrane efflux protein; Region: OEP; pfam02321 634452004332 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 634452004333 B12 binding site [chemical binding]; other site 634452004334 Radical SAM superfamily; Region: Radical_SAM; pfam04055 634452004335 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 634452004336 FeS/SAM binding site; other site 634452004337 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 634452004338 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 634452004339 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 634452004340 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 634452004341 N-terminal plug; other site 634452004342 ligand-binding site [chemical binding]; other site 634452004343 Conserved TM helix; Region: TM_helix; pfam05552 634452004344 Mechanosensitive ion channel; Region: MS_channel; pfam00924 634452004345 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 634452004346 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 634452004347 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 634452004348 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 634452004349 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 634452004350 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 634452004351 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452004352 Walker A/P-loop; other site 634452004353 ATP binding site [chemical binding]; other site 634452004354 Q-loop/lid; other site 634452004355 ABC transporter signature motif; other site 634452004356 Walker B; other site 634452004357 D-loop; other site 634452004358 H-loop/switch region; other site 634452004359 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 634452004360 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634452004361 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452004362 Walker A/P-loop; other site 634452004363 ATP binding site [chemical binding]; other site 634452004364 Q-loop/lid; other site 634452004365 ABC transporter signature motif; other site 634452004366 Walker B; other site 634452004367 D-loop; other site 634452004368 H-loop/switch region; other site 634452004369 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 634452004370 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 634452004371 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 634452004372 N-terminal plug; other site 634452004373 ligand-binding site [chemical binding]; other site 634452004374 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 634452004375 Sel1-like repeats; Region: SEL1; smart00671 634452004376 Sel1-like repeats; Region: SEL1; smart00671 634452004377 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452004378 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452004379 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 634452004380 active site 634452004381 homotetramer interface [polypeptide binding]; other site 634452004382 homodimer interface [polypeptide binding]; other site 634452004383 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 634452004384 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 634452004385 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452004386 homodimer interface [polypeptide binding]; other site 634452004387 catalytic residue [active] 634452004388 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 634452004389 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 634452004390 TrkA-C domain; Region: TrkA_C; pfam02080 634452004391 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 634452004392 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 634452004393 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 634452004394 active site 634452004395 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 634452004396 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 634452004397 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 634452004398 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452004399 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 634452004400 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634452004401 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452004402 Walker A/P-loop; other site 634452004403 ATP binding site [chemical binding]; other site 634452004404 Q-loop/lid; other site 634452004405 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634452004406 ABC transporter signature motif; other site 634452004407 Walker B; other site 634452004408 ABC transporter; Region: ABC_tran_2; pfam12848 634452004409 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634452004410 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634452004411 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452004412 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 634452004413 dimerization interface [polypeptide binding]; other site 634452004414 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452004415 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 634452004416 Hint domain; Region: Hint_2; pfam13403 634452004417 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634452004418 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 634452004419 N-terminal plug; other site 634452004420 ligand-binding site [chemical binding]; other site 634452004421 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 634452004422 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 634452004423 putative NAD(P) binding site [chemical binding]; other site 634452004424 putative substrate binding site [chemical binding]; other site 634452004425 catalytic Zn binding site [ion binding]; other site 634452004426 structural Zn binding site [ion binding]; other site 634452004427 dimer interface [polypeptide binding]; other site 634452004428 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452004429 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 634452004430 SnoaL-like domain; Region: SnoaL_2; pfam12680 634452004431 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 634452004432 dimerization interface [polypeptide binding]; other site 634452004433 metal binding site [ion binding]; metal-binding site 634452004434 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 634452004435 catalytic core [active] 634452004436 MgtC family; Region: MgtC; pfam02308 634452004437 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 634452004438 putative CoA-transferase; Provisional; Region: PRK11430 634452004439 CoA-transferase family III; Region: CoA_transf_3; pfam02515 634452004440 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 634452004441 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452004442 oxalyl-CoA decarboxylase; Region: oxalate_oxc; TIGR03254 634452004443 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 634452004444 PYR/PP interface [polypeptide binding]; other site 634452004445 dimer interface [polypeptide binding]; other site 634452004446 TPP binding site [chemical binding]; other site 634452004447 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634452004448 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 634452004449 TPP-binding site; other site 634452004450 dimer interface [polypeptide binding]; other site 634452004451 formyl-coenzyme A transferase; Provisional; Region: PRK05398 634452004452 CoA-transferase family III; Region: CoA_transf_3; pfam02515 634452004453 oxidoreductase; Provisional; Region: PRK12742 634452004454 classical (c) SDRs; Region: SDR_c; cd05233 634452004455 NAD(P) binding site [chemical binding]; other site 634452004456 active site 634452004457 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634452004458 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634452004459 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 634452004460 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634452004461 NAD(P) binding site [chemical binding]; other site 634452004462 active site 634452004463 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 634452004464 putative hydrophobic ligand binding site [chemical binding]; other site 634452004465 protein interface [polypeptide binding]; other site 634452004466 gate; other site 634452004467 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 634452004468 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634452004469 putative substrate translocation pore; other site 634452004470 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 634452004471 phosphoglucomutase; Validated; Region: PRK07564 634452004472 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 634452004473 active site 634452004474 substrate binding site [chemical binding]; other site 634452004475 metal binding site [ion binding]; metal-binding site 634452004476 maltose O-acetyltransferase; Provisional; Region: PRK10092 634452004477 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 634452004478 active site 634452004479 substrate binding site [chemical binding]; other site 634452004480 trimer interface [polypeptide binding]; other site 634452004481 CoA binding site [chemical binding]; other site 634452004482 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 634452004483 Hint domain; Region: Hint_2; pfam13403 634452004484 HTH-like domain; Region: HTH_21; pfam13276 634452004485 Integrase core domain; Region: rve; pfam00665 634452004486 Integrase core domain; Region: rve_3; pfam13683 634452004487 Transposase; Region: HTH_Tnp_1; pfam01527 634452004488 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 634452004489 FecR protein; Region: FecR; pfam04773 634452004490 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 634452004491 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 634452004492 DNA binding residues [nucleotide binding] 634452004493 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 634452004494 sensor protein QseC; Provisional; Region: PRK10337 634452004495 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634452004496 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 634452004497 dimer interface [polypeptide binding]; other site 634452004498 phosphorylation site [posttranslational modification] 634452004499 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634452004500 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 634452004501 active site 634452004502 phosphorylation site [posttranslational modification] 634452004503 intermolecular recognition site; other site 634452004504 dimerization interface [polypeptide binding]; other site 634452004505 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 634452004506 DNA binding site [nucleotide binding] 634452004507 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 634452004508 HlyD family secretion protein; Region: HlyD_2; pfam12700 634452004509 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634452004510 HlyD family secretion protein; Region: HlyD_3; pfam13437 634452004511 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 634452004512 Outer membrane efflux protein; Region: OEP; pfam02321 634452004513 acyl-CoA synthetase; Validated; Region: PRK09192 634452004514 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 634452004515 acyl-activating enzyme (AAE) consensus motif; other site 634452004516 active site 634452004517 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 634452004518 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 634452004519 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 634452004520 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634452004521 catalytic residue [active] 634452004522 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 634452004523 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 634452004524 active site 634452004525 metal binding site [ion binding]; metal-binding site 634452004526 Predicted permeases [General function prediction only]; Region: COG0795 634452004527 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 634452004528 Predicted permeases [General function prediction only]; Region: COG0795 634452004529 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 634452004530 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 634452004531 active site 634452004532 MobA-like NTP transferase domain; Region: NTP_transf_3; pfam12804 634452004533 phosphoglycolate phosphatase; Provisional; Region: PRK13222 634452004534 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 634452004535 motif II; other site 634452004536 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 634452004537 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 634452004538 Substrate binding site; other site 634452004539 Mg++ binding site; other site 634452004540 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 634452004541 active site 634452004542 substrate binding site [chemical binding]; other site 634452004543 CoA binding site [chemical binding]; other site 634452004544 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 634452004545 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 634452004546 glutaminase active site [active] 634452004547 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 634452004548 dimer interface [polypeptide binding]; other site 634452004549 active site 634452004550 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 634452004551 dimer interface [polypeptide binding]; other site 634452004552 active site 634452004553 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634452004554 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452004555 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452004556 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452004557 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452004558 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 634452004559 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 634452004560 Transcriptional regulator [Transcription]; Region: IclR; COG1414 634452004561 Bacterial transcriptional regulator; Region: IclR; pfam01614 634452004562 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 634452004563 catalytic residues [active] 634452004564 dimer interface [polypeptide binding]; other site 634452004565 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 634452004566 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 634452004567 Walker A/P-loop; other site 634452004568 ATP binding site [chemical binding]; other site 634452004569 Q-loop/lid; other site 634452004570 ABC transporter signature motif; other site 634452004571 Walker B; other site 634452004572 D-loop; other site 634452004573 H-loop/switch region; other site 634452004574 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 634452004575 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 634452004576 FtsX-like permease family; Region: FtsX; pfam02687 634452004577 prolyl-tRNA synthetase; Provisional; Region: PRK12325 634452004578 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 634452004579 dimer interface [polypeptide binding]; other site 634452004580 motif 1; other site 634452004581 active site 634452004582 motif 2; other site 634452004583 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 634452004584 active site 634452004585 motif 3; other site 634452004586 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 634452004587 anticodon binding site; other site 634452004588 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 634452004589 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 634452004590 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 634452004591 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 634452004592 nucleotide binding site [chemical binding]; other site 634452004593 Type III pantothenate kinase; Region: Pan_kinase; cl17198 634452004594 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 634452004595 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 634452004596 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 634452004597 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 634452004598 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 634452004599 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 634452004600 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 634452004601 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 634452004602 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 634452004603 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 634452004604 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 634452004605 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 634452004606 4Fe-4S binding domain; Region: Fer4; cl02805 634452004607 4Fe-4S binding domain; Region: Fer4; pfam00037 634452004608 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 634452004609 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 634452004610 NADH dehydrogenase subunit G; Validated; Region: PRK09130 634452004611 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 634452004612 catalytic loop [active] 634452004613 iron binding site [ion binding]; other site 634452004614 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 634452004615 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 634452004616 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 634452004617 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 634452004618 SLBB domain; Region: SLBB; pfam10531 634452004619 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 634452004620 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 634452004621 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 634452004622 putative dimer interface [polypeptide binding]; other site 634452004623 [2Fe-2S] cluster binding site [ion binding]; other site 634452004624 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 634452004625 NADH dehydrogenase subunit D; Validated; Region: PRK06075 634452004626 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 634452004627 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 634452004628 NADH dehydrogenase subunit B; Validated; Region: PRK06411 634452004629 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 634452004630 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 634452004631 IHF dimer interface [polypeptide binding]; other site 634452004632 IHF - DNA interface [nucleotide binding]; other site 634452004633 Found in ATP-dependent protease La (LON); Region: LON; smart00464 634452004634 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 634452004635 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 634452004636 Walker A motif; other site 634452004637 ATP binding site [chemical binding]; other site 634452004638 Walker B motif; other site 634452004639 arginine finger; other site 634452004640 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 634452004641 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 634452004642 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 634452004643 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 634452004644 Walker A motif; other site 634452004645 ATP binding site [chemical binding]; other site 634452004646 Walker B motif; other site 634452004647 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 634452004648 Clp protease; Region: CLP_protease; pfam00574 634452004649 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 634452004650 oligomer interface [polypeptide binding]; other site 634452004651 active site residues [active] 634452004652 trigger factor; Provisional; Region: tig; PRK01490 634452004653 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 634452004654 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 634452004655 Uncharacterized conserved protein [Function unknown]; Region: COG0062 634452004656 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 634452004657 putative substrate binding site [chemical binding]; other site 634452004658 putative ATP binding site [chemical binding]; other site 634452004659 Predicted integral membrane protein [Function unknown]; Region: COG5615 634452004660 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 634452004661 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 634452004662 ATP binding site [chemical binding]; other site 634452004663 Mg++ binding site [ion binding]; other site 634452004664 motif III; other site 634452004665 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 634452004666 nucleotide binding region [chemical binding]; other site 634452004667 ATP-binding site [chemical binding]; other site 634452004668 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 634452004669 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 634452004670 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 634452004671 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 634452004672 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 634452004673 trimerization site [polypeptide binding]; other site 634452004674 active site 634452004675 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 634452004676 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 634452004677 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634452004678 catalytic residue [active] 634452004679 FeS assembly protein SufD; Region: sufD; TIGR01981 634452004680 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 634452004681 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 634452004682 FeS assembly ATPase SufC; Region: sufC; TIGR01978 634452004683 Walker A/P-loop; other site 634452004684 ATP binding site [chemical binding]; other site 634452004685 Q-loop/lid; other site 634452004686 ABC transporter signature motif; other site 634452004687 Walker B; other site 634452004688 D-loop; other site 634452004689 H-loop/switch region; other site 634452004690 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 634452004691 putative ABC transporter; Region: ycf24; CHL00085 634452004692 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 634452004693 Transcriptional regulator; Region: Rrf2; pfam02082 634452004694 Transcriptional regulator; Region: Rrf2; cl17282 634452004695 Protein of unknown function (DUF445); Region: DUF445; pfam04286 634452004696 Peroxin-3; Region: Peroxin-3; pfam04882 634452004697 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 634452004698 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 634452004699 elongation factor G; Reviewed; Region: PRK12739 634452004700 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 634452004701 G1 box; other site 634452004702 putative GEF interaction site [polypeptide binding]; other site 634452004703 GTP/Mg2+ binding site [chemical binding]; other site 634452004704 Switch I region; other site 634452004705 G2 box; other site 634452004706 G3 box; other site 634452004707 Switch II region; other site 634452004708 G4 box; other site 634452004709 G5 box; other site 634452004710 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 634452004711 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 634452004712 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 634452004713 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 634452004714 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634452004715 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 634452004716 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 634452004717 Walker A/P-loop; other site 634452004718 ATP binding site [chemical binding]; other site 634452004719 Q-loop/lid; other site 634452004720 ABC transporter signature motif; other site 634452004721 Walker B; other site 634452004722 D-loop; other site 634452004723 H-loop/switch region; other site 634452004724 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 634452004725 nudix motif; other site 634452004726 PII uridylyl-transferase; Provisional; Region: PRK05092 634452004727 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 634452004728 metal binding triad; other site 634452004729 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 634452004730 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 634452004731 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 634452004732 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 634452004733 MutS domain I; Region: MutS_I; pfam01624 634452004734 MutS domain II; Region: MutS_II; pfam05188 634452004735 MutS domain III; Region: MutS_III; pfam05192 634452004736 MutS domain V; Region: MutS_V; pfam00488 634452004737 Walker A/P-loop; other site 634452004738 ATP binding site [chemical binding]; other site 634452004739 Q-loop/lid; other site 634452004740 ABC transporter signature motif; other site 634452004741 Walker B; other site 634452004742 D-loop; other site 634452004743 H-loop/switch region; other site 634452004744 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 634452004745 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 634452004746 binding surface 634452004747 TPR motif; other site 634452004748 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 634452004749 binding surface 634452004750 TPR motif; other site 634452004751 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 634452004752 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 634452004753 active site 634452004754 Zn binding site [ion binding]; other site 634452004755 Major royal jelly protein; Region: MRJP; pfam03022 634452004756 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 634452004757 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 634452004758 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452004759 catalytic residue [active] 634452004760 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 634452004761 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 634452004762 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 634452004763 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 634452004764 Tim44-like domain; Region: Tim44; pfam04280 634452004765 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 634452004766 UbiA prenyltransferase family; Region: UbiA; pfam01040 634452004767 cytochrome c oxidase subunit I; Provisional; Region: COX1; MTH00182 634452004768 cytochrome c oxidase subunit I; Provisional; Region: COX1; MTH00182 634452004769 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 634452004770 S-adenosylmethionine binding site [chemical binding]; other site 634452004771 glutathione synthetase; Provisional; Region: PRK05246 634452004772 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 634452004773 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 634452004774 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 634452004775 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 634452004776 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 634452004777 Ligand binding site; other site 634452004778 Putative Catalytic site; other site 634452004779 DXD motif; other site 634452004780 Predicted membrane protein [Function unknown]; Region: COG2246 634452004781 GtrA-like protein; Region: GtrA; pfam04138 634452004782 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 634452004783 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 634452004784 putative Zn2+ binding site [ion binding]; other site 634452004785 AsnC family; Region: AsnC_trans_reg; pfam01037 634452004786 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 634452004787 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634452004788 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634452004789 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634452004790 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452004791 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 634452004792 putative effector binding pocket; other site 634452004793 dimerization interface [polypeptide binding]; other site 634452004794 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 634452004795 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 634452004796 IHF - DNA interface [nucleotide binding]; other site 634452004797 IHF dimer interface [polypeptide binding]; other site 634452004798 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 634452004799 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 634452004800 Fe-S cluster binding site [ion binding]; other site 634452004801 active site 634452004802 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 634452004803 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 634452004804 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 634452004805 Domain of unknown function DUF20; Region: UPF0118; pfam01594 634452004806 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 634452004807 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 634452004808 DNA binding residues [nucleotide binding] 634452004809 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 634452004810 IHF - DNA interface [nucleotide binding]; other site 634452004811 IHF dimer interface [polypeptide binding]; other site 634452004812 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 634452004813 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 634452004814 dimer interface [polypeptide binding]; other site 634452004815 active site 634452004816 CoA binding pocket [chemical binding]; other site 634452004817 putative phosphate acyltransferase; Provisional; Region: PRK05331 634452004818 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 634452004819 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 634452004820 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 634452004821 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 634452004822 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 634452004823 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 634452004824 dimerization interface [polypeptide binding]; other site 634452004825 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 634452004826 ATP binding site [chemical binding]; other site 634452004827 Mg2+ binding site [ion binding]; other site 634452004828 G-X-G motif; other site 634452004829 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634452004830 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 634452004831 active site 634452004832 phosphorylation site [posttranslational modification] 634452004833 intermolecular recognition site; other site 634452004834 dimerization interface [polypeptide binding]; other site 634452004835 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 634452004836 DNA binding site [nucleotide binding] 634452004837 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 634452004838 MarR family; Region: MarR_2; pfam12802 634452004839 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 634452004840 COQ9; Region: COQ9; pfam08511 634452004841 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 634452004842 active site 634452004843 catalytic residues [active] 634452004844 metal binding site [ion binding]; metal-binding site 634452004845 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 634452004846 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 634452004847 tartrate dehydrogenase; Region: TTC; TIGR02089 634452004848 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 634452004849 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 634452004850 substrate binding site [chemical binding]; other site 634452004851 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 634452004852 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 634452004853 substrate binding site [chemical binding]; other site 634452004854 ligand binding site [chemical binding]; other site 634452004855 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 634452004856 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 634452004857 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 634452004858 RimM N-terminal domain; Region: RimM; pfam01782 634452004859 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 634452004860 signal recognition particle protein; Provisional; Region: PRK10867 634452004861 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 634452004862 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 634452004863 P loop; other site 634452004864 GTP binding site [chemical binding]; other site 634452004865 Signal peptide binding domain; Region: SRP_SPB; pfam02978 634452004866 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 634452004867 dimer interface [polypeptide binding]; other site 634452004868 ATP12 chaperone protein; Region: ATP12; pfam07542 634452004869 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 634452004870 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 634452004871 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 634452004872 RNA binding surface [nucleotide binding]; other site 634452004873 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 634452004874 active site 634452004875 recombination factor protein RarA; Reviewed; Region: PRK13342 634452004876 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 634452004877 Walker A motif; other site 634452004878 ATP binding site [chemical binding]; other site 634452004879 Walker B motif; other site 634452004880 arginine finger; other site 634452004881 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 634452004882 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 634452004883 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 634452004884 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 634452004885 UbiA prenyltransferase family; Region: UbiA; pfam01040 634452004886 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 634452004887 RNA methyltransferase, RsmE family; Region: TIGR00046 634452004888 glutamate--cysteine ligase; Region: PLN02611 634452004889 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 634452004890 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634452004891 putative substrate translocation pore; other site 634452004892 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 634452004893 GTP-binding protein Der; Reviewed; Region: PRK00093 634452004894 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 634452004895 G1 box; other site 634452004896 GTP/Mg2+ binding site [chemical binding]; other site 634452004897 Switch I region; other site 634452004898 G2 box; other site 634452004899 Switch II region; other site 634452004900 G3 box; other site 634452004901 G4 box; other site 634452004902 G5 box; other site 634452004903 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 634452004904 G1 box; other site 634452004905 GTP/Mg2+ binding site [chemical binding]; other site 634452004906 Switch I region; other site 634452004907 G2 box; other site 634452004908 G3 box; other site 634452004909 Switch II region; other site 634452004910 G4 box; other site 634452004911 G5 box; other site 634452004912 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 634452004913 Trp docking motif [polypeptide binding]; other site 634452004914 active site 634452004915 PQQ-like domain; Region: PQQ_2; pfam13360 634452004916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 634452004917 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 634452004918 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 634452004919 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 634452004920 putative active site [active] 634452004921 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 634452004922 putative ADP-binding pocket [chemical binding]; other site 634452004923 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634452004924 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 634452004925 active site 634452004926 dimer interface [polypeptide binding]; other site 634452004927 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 634452004928 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 634452004929 Ligand Binding Site [chemical binding]; other site 634452004930 Molecular Tunnel; other site 634452004931 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 634452004932 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 634452004933 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 634452004934 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 634452004935 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 634452004936 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 634452004937 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 634452004938 Sulfate transporter family; Region: Sulfate_transp; pfam00916 634452004939 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 634452004940 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 634452004941 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 634452004942 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 634452004943 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 634452004944 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 634452004945 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 634452004946 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 634452004947 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 634452004948 Clp amino terminal domain; Region: Clp_N; pfam02861 634452004949 Clp amino terminal domain; Region: Clp_N; pfam02861 634452004950 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 634452004951 Walker A motif; other site 634452004952 ATP binding site [chemical binding]; other site 634452004953 Walker B motif; other site 634452004954 arginine finger; other site 634452004955 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 634452004956 Walker A motif; other site 634452004957 ATP binding site [chemical binding]; other site 634452004958 Walker B motif; other site 634452004959 arginine finger; other site 634452004960 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 634452004961 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 634452004962 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 634452004963 nudix motif; other site 634452004964 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 634452004965 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 634452004966 HflX GTPase family; Region: HflX; cd01878 634452004967 G1 box; other site 634452004968 GTP/Mg2+ binding site [chemical binding]; other site 634452004969 Switch I region; other site 634452004970 G2 box; other site 634452004971 G3 box; other site 634452004972 Switch II region; other site 634452004973 G4 box; other site 634452004974 G5 box; other site 634452004975 bacterial Hfq-like; Region: Hfq; cd01716 634452004976 hexamer interface [polypeptide binding]; other site 634452004977 Sm1 motif; other site 634452004978 RNA binding site [nucleotide binding]; other site 634452004979 Sm2 motif; other site 634452004980 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 634452004981 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 634452004982 active site 634452004983 phosphorylation site [posttranslational modification] 634452004984 intermolecular recognition site; other site 634452004985 dimerization interface [polypeptide binding]; other site 634452004986 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 634452004987 Walker A motif; other site 634452004988 ATP binding site [chemical binding]; other site 634452004989 Walker B motif; other site 634452004990 arginine finger; other site 634452004991 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 634452004992 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 634452004993 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 634452004994 dimerization interface [polypeptide binding]; other site 634452004995 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 634452004996 dimer interface [polypeptide binding]; other site 634452004997 phosphorylation site [posttranslational modification] 634452004998 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 634452004999 ATP binding site [chemical binding]; other site 634452005000 Mg2+ binding site [ion binding]; other site 634452005001 G-X-G motif; other site 634452005002 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 634452005003 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 634452005004 active site 634452005005 phosphorylation site [posttranslational modification] 634452005006 intermolecular recognition site; other site 634452005007 dimerization interface [polypeptide binding]; other site 634452005008 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 634452005009 Walker A motif; other site 634452005010 ATP binding site [chemical binding]; other site 634452005011 Walker B motif; other site 634452005012 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 634452005013 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 634452005014 PAS domain; Region: PAS; smart00091 634452005015 putative active site [active] 634452005016 heme pocket [chemical binding]; other site 634452005017 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 634452005018 dimer interface [polypeptide binding]; other site 634452005019 phosphorylation site [posttranslational modification] 634452005020 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 634452005021 ATP binding site [chemical binding]; other site 634452005022 Mg2+ binding site [ion binding]; other site 634452005023 G-X-G motif; other site 634452005024 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 634452005025 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 634452005026 FMN binding site [chemical binding]; other site 634452005027 active site 634452005028 catalytic residues [active] 634452005029 substrate binding site [chemical binding]; other site 634452005030 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 634452005031 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 634452005032 substrate binding site; other site 634452005033 dimer interface; other site 634452005034 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 634452005035 homotrimer interaction site [polypeptide binding]; other site 634452005036 zinc binding site [ion binding]; other site 634452005037 CDP-binding sites; other site 634452005038 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 634452005039 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 634452005040 Ligand binding site; other site 634452005041 Putative Catalytic site; other site 634452005042 DXD motif; other site 634452005043 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 634452005044 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 634452005045 active site 634452005046 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 634452005047 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 634452005048 UDP-galactopyranose mutase; Region: GLF; pfam03275 634452005049 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 634452005050 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 634452005051 active site 634452005052 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 634452005053 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634452005054 active site 634452005055 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634452005056 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 634452005057 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634452005058 active site 634452005059 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 634452005060 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 634452005061 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 634452005062 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 634452005063 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 634452005064 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 634452005065 Probable transposase; Region: OrfB_IS605; pfam01385 634452005066 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 634452005067 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 634452005068 Nitrogen regulatory protein P-II; Region: P-II; smart00938 634452005069 serine acetyltransferase; Provisional; Region: cysE; PRK11132 634452005070 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 634452005071 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 634452005072 trimer interface [polypeptide binding]; other site 634452005073 active site 634452005074 substrate binding site [chemical binding]; other site 634452005075 CoA binding site [chemical binding]; other site 634452005076 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 634452005077 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 634452005078 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 634452005079 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 634452005080 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 634452005081 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 634452005082 DDE superfamily endonuclease; Region: DDE_5; cl17874 634452005083 elongation factor P; Validated; Region: PRK00529 634452005084 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 634452005085 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 634452005086 RNA binding site [nucleotide binding]; other site 634452005087 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 634452005088 RNA binding site [nucleotide binding]; other site 634452005089 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 634452005090 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 634452005091 active site 634452005092 dimerization interface [polypeptide binding]; other site 634452005093 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 634452005094 ATP binding site [chemical binding]; other site 634452005095 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 634452005096 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 634452005097 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 634452005098 DNA-binding site [nucleotide binding]; DNA binding site 634452005099 RNA-binding motif; other site 634452005100 Dienelactone hydrolase family; Region: DLH; pfam01738 634452005101 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 634452005102 oligomerisation interface [polypeptide binding]; other site 634452005103 mobile loop; other site 634452005104 roof hairpin; other site 634452005105 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 634452005106 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 634452005107 ring oligomerisation interface [polypeptide binding]; other site 634452005108 ATP/Mg binding site [chemical binding]; other site 634452005109 stacking interactions; other site 634452005110 hinge regions; other site 634452005111 FkbH-like domain; Region: FkbH; TIGR01686 634452005112 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 634452005113 active site 634452005114 motif I; other site 634452005115 motif II; other site 634452005116 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634452005117 Transposase; Region: HTH_Tnp_1; pfam01527 634452005118 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 634452005119 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634452005120 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 634452005121 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634452005122 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 634452005123 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 634452005124 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 634452005125 Transposase domain (DUF772); Region: DUF772; pfam05598 634452005126 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452005127 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 634452005128 HTH-like domain; Region: HTH_21; pfam13276 634452005129 Integrase core domain; Region: rve; pfam00665 634452005130 Integrase core domain; Region: rve_3; pfam13683 634452005131 Transposase; Region: HTH_Tnp_1; pfam01527 634452005132 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452005133 Transposase domain (DUF772); Region: DUF772; pfam05598 634452005134 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 634452005135 Ligand binding site; other site 634452005136 Phosphotransferase enzyme family; Region: APH; pfam01636 634452005137 capsule biosynthesis phosphatase; Region: EcbF-BcbF; TIGR01689 634452005138 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634452005139 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452005140 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 634452005141 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452005142 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452005143 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 634452005144 GDP-Fucose binding site [chemical binding]; other site 634452005145 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 634452005146 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 634452005147 substrate binding site; other site 634452005148 tetramer interface; other site 634452005149 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 634452005150 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 634452005151 NAD binding site [chemical binding]; other site 634452005152 substrate binding site [chemical binding]; other site 634452005153 homodimer interface [polypeptide binding]; other site 634452005154 active site 634452005155 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634452005156 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 634452005157 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452005158 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452005159 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452005160 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634452005161 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452005162 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452005163 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634452005164 Transposase domain (DUF772); Region: DUF772; pfam05598 634452005165 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452005166 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 634452005167 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634452005168 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 634452005169 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 634452005170 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 634452005171 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 634452005172 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634452005173 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634452005174 Transposase; Region: HTH_Tnp_1; pfam01527 634452005175 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 634452005176 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 634452005177 active site 634452005178 catalytic triad [active] 634452005179 oxyanion hole [active] 634452005180 Glycosyltransferase family 17; Region: Glyco_transf_17; pfam04724 634452005181 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 634452005182 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 634452005183 Aspartyl protease; Region: Asp_protease_2; pfam13650 634452005184 inhibitor binding site; inhibition site 634452005185 catalytic motif [active] 634452005186 Catalytic residue [active] 634452005187 Active site flap [active] 634452005188 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 634452005189 inhibitor binding site; inhibition site 634452005190 catalytic motif [active] 634452005191 Catalytic residue [active] 634452005192 Active site flap [active] 634452005193 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 634452005194 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 634452005195 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 634452005196 active site 634452005197 DNA binding site [nucleotide binding] 634452005198 Int/Topo IB signature motif; other site 634452005199 primosome assembly protein PriA; Validated; Region: PRK05580 634452005200 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 634452005201 ATP binding site [chemical binding]; other site 634452005202 putative Mg++ binding site [ion binding]; other site 634452005203 Preprotein translocase subunit; Region: YajC; pfam02699 634452005204 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 634452005205 Protein of unknown function (DUF815); Region: DUF815; pfam05673 634452005206 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 634452005207 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 634452005208 [2Fe-2S] cluster binding site [ion binding]; other site 634452005209 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 634452005210 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634452005211 Coenzyme A binding pocket [chemical binding]; other site 634452005212 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 634452005213 active site 634452005214 8-oxo-dGMP binding site [chemical binding]; other site 634452005215 nudix motif; other site 634452005216 metal binding site [ion binding]; metal-binding site 634452005217 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 634452005218 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 634452005219 Substrate binding site; other site 634452005220 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 634452005221 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 634452005222 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 634452005223 homodimer interface [polypeptide binding]; other site 634452005224 substrate-cofactor binding pocket; other site 634452005225 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452005226 catalytic residue [active] 634452005227 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 634452005228 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 634452005229 GTP cyclohydrolase I; Provisional; Region: PLN03044 634452005230 active site 634452005231 intracellular protease, PfpI family; Region: PfpI; TIGR01382 634452005232 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 634452005233 conserved cys residue [active] 634452005234 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 634452005235 MPT binding site; other site 634452005236 trimer interface [polypeptide binding]; other site 634452005237 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634452005238 Uncharacterized conserved protein [Function unknown]; Region: COG4717 634452005239 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 634452005240 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 634452005241 active site 634452005242 metal binding site [ion binding]; metal-binding site 634452005243 DNA binding site [nucleotide binding] 634452005244 Fusaric acid resistance protein family; Region: FUSC; pfam04632 634452005245 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 634452005246 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 634452005247 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 634452005248 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634452005249 HlyD family secretion protein; Region: HlyD_3; pfam13437 634452005250 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 634452005251 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 634452005252 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 634452005253 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 634452005254 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 634452005255 homopentamer interface [polypeptide binding]; other site 634452005256 active site 634452005257 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 634452005258 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 634452005259 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 634452005260 dimerization interface [polypeptide binding]; other site 634452005261 active site 634452005262 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 634452005263 Lumazine binding domain; Region: Lum_binding; pfam00677 634452005264 Lumazine binding domain; Region: Lum_binding; pfam00677 634452005265 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 634452005266 catalytic motif [active] 634452005267 Zn binding site [ion binding]; other site 634452005268 RibD C-terminal domain; Region: RibD_C; cl17279 634452005269 cytochrome b; Provisional; Region: CYTB; MTH00145 634452005270 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 634452005271 Qi binding site; other site 634452005272 intrachain domain interface; other site 634452005273 interchain domain interface [polypeptide binding]; other site 634452005274 heme bH binding site [chemical binding]; other site 634452005275 heme bL binding site [chemical binding]; other site 634452005276 Qo binding site; other site 634452005277 interchain domain interface [polypeptide binding]; other site 634452005278 intrachain domain interface; other site 634452005279 Qi binding site; other site 634452005280 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 634452005281 Qo binding site; other site 634452005282 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 634452005283 Cytochrome c; Region: Cytochrom_C; cl11414 634452005284 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 634452005285 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 634452005286 [2Fe-2S] cluster binding site [ion binding]; other site 634452005287 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 634452005288 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 634452005289 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 634452005290 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 634452005291 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 634452005292 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 634452005293 Hint domain; Region: Hint_2; pfam13403 634452005294 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 634452005295 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 634452005296 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452005297 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 634452005298 Predicted helicase [General function prediction only]; Region: COG4889 634452005299 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 634452005300 ATP binding site [chemical binding]; other site 634452005301 putative Mg++ binding site [ion binding]; other site 634452005302 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 634452005303 ATP-binding site [chemical binding]; other site 634452005304 Protein of unknown function DUF262; Region: DUF262; pfam03235 634452005305 Uncharacterized conserved protein [Function unknown]; Region: COG1479 634452005306 Protein of unknown function DUF262; Region: DUF262; pfam03235 634452005307 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 634452005308 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 634452005309 HTH-like domain; Region: HTH_21; pfam13276 634452005310 Integrase core domain; Region: rve; pfam00665 634452005311 Integrase core domain; Region: rve_3; pfam13683 634452005312 Transposase; Region: HTH_Tnp_1; pfam01527 634452005313 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 634452005314 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 634452005315 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 634452005316 GTPase CgtA; Reviewed; Region: obgE; PRK12299 634452005317 GTP1/OBG; Region: GTP1_OBG; pfam01018 634452005318 Obg GTPase; Region: Obg; cd01898 634452005319 G1 box; other site 634452005320 GTP/Mg2+ binding site [chemical binding]; other site 634452005321 Switch I region; other site 634452005322 G2 box; other site 634452005323 G3 box; other site 634452005324 Switch II region; other site 634452005325 G4 box; other site 634452005326 G5 box; other site 634452005327 gamma-glutamyl kinase; Provisional; Region: PRK05429 634452005328 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 634452005329 nucleotide binding site [chemical binding]; other site 634452005330 homotetrameric interface [polypeptide binding]; other site 634452005331 putative phosphate binding site [ion binding]; other site 634452005332 putative allosteric binding site; other site 634452005333 PUA domain; Region: PUA; pfam01472 634452005334 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 634452005335 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 634452005336 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 634452005337 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 634452005338 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 634452005339 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 634452005340 substrate binding pocket [chemical binding]; other site 634452005341 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 634452005342 cell division protein MraZ; Reviewed; Region: PRK00326 634452005343 MraZ protein; Region: MraZ; pfam02381 634452005344 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 634452005345 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 634452005346 S-adenosylmethionine binding site [chemical binding]; other site 634452005347 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 634452005348 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 634452005349 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 634452005350 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 634452005351 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 634452005352 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 634452005353 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634452005354 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 634452005355 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 634452005356 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 634452005357 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634452005358 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 634452005359 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 634452005360 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 634452005361 Mg++ binding site [ion binding]; other site 634452005362 putative catalytic motif [active] 634452005363 putative substrate binding site [chemical binding]; other site 634452005364 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 634452005365 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634452005366 cell division protein FtsW; Region: ftsW; TIGR02614 634452005367 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 634452005368 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 634452005369 active site 634452005370 homodimer interface [polypeptide binding]; other site 634452005371 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 634452005372 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 634452005373 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634452005374 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 634452005375 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 634452005376 FAD binding domain; Region: FAD_binding_4; pfam01565 634452005377 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 634452005378 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 634452005379 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 634452005380 ATP-grasp domain; Region: ATP-grasp_4; cl17255 634452005381 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 634452005382 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 634452005383 Cell division protein FtsQ; Region: FtsQ; pfam03799 634452005384 Cell division protein FtsA; Region: FtsA; smart00842 634452005385 cell division protein FtsA; Region: ftsA; TIGR01174 634452005386 Cell division protein FtsA; Region: FtsA; pfam14450 634452005387 cell division protein FtsZ; Validated; Region: PRK09330 634452005388 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 634452005389 nucleotide binding site [chemical binding]; other site 634452005390 SulA interaction site; other site 634452005391 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 634452005392 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 634452005393 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 634452005394 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 634452005395 binding surface 634452005396 TPR motif; other site 634452005397 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 634452005398 Walker A/P-loop; other site 634452005399 ATP binding site [chemical binding]; other site 634452005400 Q-loop/lid; other site 634452005401 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 634452005402 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 634452005403 ABC transporter signature motif; other site 634452005404 Walker B; other site 634452005405 D-loop; other site 634452005406 H-loop/switch region; other site 634452005407 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 634452005408 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 634452005409 nucleotide binding pocket [chemical binding]; other site 634452005410 K-X-D-G motif; other site 634452005411 catalytic site [active] 634452005412 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 634452005413 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 634452005414 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 634452005415 Dimer interface [polypeptide binding]; other site 634452005416 BRCT sequence motif; other site 634452005417 pyruvate phosphate dikinase; Provisional; Region: PRK09279 634452005418 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 634452005419 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 634452005420 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 634452005421 PEP synthetase regulatory protein; Provisional; Region: PRK05339 634452005422 Uncharacterized conserved protein [Function unknown]; Region: COG1739 634452005423 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 634452005424 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 634452005425 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 634452005426 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 634452005427 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 634452005428 active site 634452005429 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 634452005430 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634452005431 active site 634452005432 HIGH motif; other site 634452005433 nucleotide binding site [chemical binding]; other site 634452005434 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 634452005435 active site 634452005436 KMSKS motif; other site 634452005437 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 634452005438 Isochorismatase family; Region: Isochorismatase; pfam00857 634452005439 catalytic triad [active] 634452005440 metal binding site [ion binding]; metal-binding site 634452005441 conserved cis-peptide bond; other site 634452005442 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 634452005443 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 634452005444 metal-binding site [ion binding] 634452005445 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 634452005446 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 634452005447 metal-binding site [ion binding] 634452005448 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 634452005449 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 634452005450 motif II; other site 634452005451 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 634452005452 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 634452005453 Multicopper oxidase; Region: Cu-oxidase; pfam00394 634452005454 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 634452005455 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 634452005456 ketol-acid reductoisomerase; Provisional; Region: PRK05479 634452005457 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 634452005458 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 634452005459 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 634452005460 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 634452005461 putative valine binding site [chemical binding]; other site 634452005462 dimer interface [polypeptide binding]; other site 634452005463 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 634452005464 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 634452005465 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 634452005466 PYR/PP interface [polypeptide binding]; other site 634452005467 dimer interface [polypeptide binding]; other site 634452005468 TPP binding site [chemical binding]; other site 634452005469 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634452005470 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 634452005471 TPP-binding site [chemical binding]; other site 634452005472 dimer interface [polypeptide binding]; other site 634452005473 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 634452005474 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 634452005475 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 634452005476 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 634452005477 motif II; other site 634452005478 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 634452005479 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 634452005480 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 634452005481 ATP binding site [chemical binding]; other site 634452005482 putative Mg++ binding site [ion binding]; other site 634452005483 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 634452005484 nucleotide binding region [chemical binding]; other site 634452005485 ATP-binding site [chemical binding]; other site 634452005486 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634452005487 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 634452005488 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634452005489 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 634452005490 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 634452005491 active site 634452005492 Zn binding site [ion binding]; other site 634452005493 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 634452005494 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 634452005495 dimer interface [polypeptide binding]; other site 634452005496 active site 634452005497 glycine-pyridoxal phosphate binding site [chemical binding]; other site 634452005498 folate binding site [chemical binding]; other site 634452005499 amino acid transporter; Region: 2A0306; TIGR00909 634452005500 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 634452005501 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 634452005502 dimer interface [polypeptide binding]; other site 634452005503 allosteric magnesium binding site [ion binding]; other site 634452005504 active site 634452005505 aspartate-rich active site metal binding site; other site 634452005506 Schiff base residues; other site 634452005507 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 634452005508 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 634452005509 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 634452005510 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 634452005511 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 634452005512 CAP-like domain; other site 634452005513 active site 634452005514 primary dimer interface [polypeptide binding]; other site 634452005515 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 634452005516 Recombination protein O N terminal; Region: RecO_N; pfam11967 634452005517 Recombination protein O C terminal; Region: RecO_C; pfam02565 634452005518 elongation factor Ts; Provisional; Region: tsf; PRK09377 634452005519 UBA/TS-N domain; Region: UBA; pfam00627 634452005520 Elongation factor TS; Region: EF_TS; pfam00889 634452005521 Elongation factor TS; Region: EF_TS; pfam00889 634452005522 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 634452005523 rRNA interaction site [nucleotide binding]; other site 634452005524 S8 interaction site; other site 634452005525 putative laminin-1 binding site; other site 634452005526 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 634452005527 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 634452005528 [2Fe-2S] cluster binding site [ion binding]; other site 634452005529 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 634452005530 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 634452005531 homodimer interface [polypeptide binding]; other site 634452005532 substrate-cofactor binding pocket; other site 634452005533 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452005534 catalytic residue [active] 634452005535 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 634452005536 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 634452005537 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 634452005538 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 634452005539 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 634452005540 putative active site [active] 634452005541 putative PHP Thumb interface [polypeptide binding]; other site 634452005542 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 634452005543 generic binding surface II; other site 634452005544 generic binding surface I; other site 634452005545 Pantoate-beta-alanine ligase; Region: PanC; cd00560 634452005546 pantoate--beta-alanine ligase; Region: panC; TIGR00018 634452005547 active site 634452005548 ATP-binding site [chemical binding]; other site 634452005549 pantoate-binding site; other site 634452005550 HXXH motif; other site 634452005551 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 634452005552 homotrimer interaction site [polypeptide binding]; other site 634452005553 putative active site [active] 634452005554 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 634452005555 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 634452005556 aspartate aminotransferase; Provisional; Region: PRK05764 634452005557 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 634452005558 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452005559 homodimer interface [polypeptide binding]; other site 634452005560 catalytic residue [active] 634452005561 aspartate aminotransferase; Provisional; Region: PRK05764 634452005562 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 634452005563 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452005564 homodimer interface [polypeptide binding]; other site 634452005565 catalytic residue [active] 634452005566 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 634452005567 active site 634452005568 HIGH motif; other site 634452005569 nucleotide binding site [chemical binding]; other site 634452005570 active site 634452005571 KMSKS motif; other site 634452005572 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 634452005573 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 634452005574 active site 634452005575 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 634452005576 metal-binding site [ion binding] 634452005577 hopanoid C-3 methylase HpnR; Region: HpnR_B12_rSAM; TIGR04367 634452005578 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 634452005579 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 634452005580 FeS/SAM binding site; other site 634452005581 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 634452005582 active site 634452005583 multimer interface [polypeptide binding]; other site 634452005584 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 634452005585 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452005586 Walker A/P-loop; other site 634452005587 ATP binding site [chemical binding]; other site 634452005588 Q-loop/lid; other site 634452005589 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634452005590 ABC transporter; Region: ABC_tran_2; pfam12848 634452005591 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634452005592 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 634452005593 Domain of unknown function DUF20; Region: UPF0118; pfam01594 634452005594 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634452005595 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 634452005596 active site 634452005597 phosphorylation site [posttranslational modification] 634452005598 intermolecular recognition site; other site 634452005599 dimerization interface [polypeptide binding]; other site 634452005600 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 634452005601 DNA binding site [nucleotide binding] 634452005602 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634452005603 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 634452005604 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 634452005605 dimer interface [polypeptide binding]; other site 634452005606 phosphorylation site [posttranslational modification] 634452005607 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 634452005608 ATP binding site [chemical binding]; other site 634452005609 Mg2+ binding site [ion binding]; other site 634452005610 G-X-G motif; other site 634452005611 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 634452005612 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 634452005613 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 634452005614 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 634452005615 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 634452005616 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 634452005617 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 634452005618 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 634452005619 active site 634452005620 dimer interface [polypeptide binding]; other site 634452005621 motif 1; other site 634452005622 motif 2; other site 634452005623 motif 3; other site 634452005624 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 634452005625 anticodon binding site; other site 634452005626 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 634452005627 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 634452005628 putative active site [active] 634452005629 TPR repeat; Region: TPR_11; pfam13414 634452005630 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 634452005631 binding surface 634452005632 TPR motif; other site 634452005633 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634452005634 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 634452005635 putative ADP-binding pocket [chemical binding]; other site 634452005636 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 634452005637 ATP-NAD kinase; Region: NAD_kinase; pfam01513 634452005638 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 634452005639 RNA/DNA hybrid binding site [nucleotide binding]; other site 634452005640 active site 634452005641 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 634452005642 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 634452005643 putative active site [active] 634452005644 putative substrate binding site [chemical binding]; other site 634452005645 ATP binding site [chemical binding]; other site 634452005646 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 634452005647 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 634452005648 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 634452005649 ABC1 family; Region: ABC1; cl17513 634452005650 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 634452005651 active site 634452005652 substrate binding site [chemical binding]; other site 634452005653 ATP binding site [chemical binding]; other site 634452005654 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 634452005655 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 634452005656 active site 634452005657 Zn binding site [ion binding]; other site 634452005658 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 634452005659 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 634452005660 active site 634452005661 dimer interface [polypeptide binding]; other site 634452005662 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 634452005663 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 634452005664 active site 634452005665 FMN binding site [chemical binding]; other site 634452005666 substrate binding site [chemical binding]; other site 634452005667 3Fe-4S cluster binding site [ion binding]; other site 634452005668 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 634452005669 domain interface; other site 634452005670 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 634452005671 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634452005672 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634452005673 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 634452005674 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 634452005675 putative NAD(P) binding site [chemical binding]; other site 634452005676 active site 634452005677 EamA-like transporter family; Region: EamA; pfam00892 634452005678 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 634452005679 EamA-like transporter family; Region: EamA; pfam00892 634452005680 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 634452005681 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 634452005682 active site 634452005683 metal binding site [ion binding]; metal-binding site 634452005684 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 634452005685 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 634452005686 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 634452005687 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 634452005688 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 634452005689 histidinol dehydrogenase; Region: hisD; TIGR00069 634452005690 NAD binding site [chemical binding]; other site 634452005691 dimerization interface [polypeptide binding]; other site 634452005692 product binding site; other site 634452005693 substrate binding site [chemical binding]; other site 634452005694 zinc binding site [ion binding]; other site 634452005695 catalytic residues [active] 634452005696 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 634452005697 rRNA binding site [nucleotide binding]; other site 634452005698 predicted 30S ribosome binding site; other site 634452005699 Maf-like protein; Region: Maf; pfam02545 634452005700 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 634452005701 active site 634452005702 dimer interface [polypeptide binding]; other site 634452005703 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 634452005704 RNA binding site [nucleotide binding]; other site 634452005705 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 634452005706 Domain of unknown function (DUF329); Region: DUF329; pfam03884 634452005707 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 634452005708 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 634452005709 catalytic residue [active] 634452005710 protease 2; Provisional; Region: PRK10115 634452005711 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 634452005712 Phage capsid family; Region: Phage_capsid; pfam05065 634452005713 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 634452005714 Phage-related protein [Function unknown]; Region: COG4695 634452005715 Phage portal protein; Region: Phage_portal; pfam04860 634452005716 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 634452005717 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 634452005718 active site 634452005719 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 634452005720 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 634452005721 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 634452005722 active site 634452005723 DNA binding site [nucleotide binding] 634452005724 Int/Topo IB signature motif; other site 634452005725 Protein of unknown function (DUF2283); Region: DUF2283; pfam10049 634452005726 Prophage antirepressor [Transcription]; Region: COG3617 634452005727 BRO family, N-terminal domain; Region: Bro-N; smart01040 634452005728 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 634452005729 Predicted transcriptional regulator [Transcription]; Region: COG2932 634452005730 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 634452005731 Catalytic site [active] 634452005732 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 634452005733 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 634452005734 active site 634452005735 catalytic site [active] 634452005736 substrate binding site [chemical binding]; other site 634452005737 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 634452005738 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 634452005739 non-specific DNA binding site [nucleotide binding]; other site 634452005740 salt bridge; other site 634452005741 sequence-specific DNA binding site [nucleotide binding]; other site 634452005742 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 634452005743 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 634452005744 active site 634452005745 DNA binding site [nucleotide binding] 634452005746 Int/Topo IB signature motif; other site 634452005747 Cytochrome c; Region: Cytochrom_C; pfam00034 634452005748 3beta17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 3beta-17beta-HSD_like_SDR_c; cd05341 634452005749 homotetramer interface [polypeptide binding]; other site 634452005750 short chain dehydrogenase; Validated; Region: PRK07069 634452005751 NAD binding site [chemical binding]; other site 634452005752 homodimer interface [polypeptide binding]; other site 634452005753 active site 634452005754 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 634452005755 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634452005756 NAD binding site [chemical binding]; other site 634452005757 catalytic residues [active] 634452005758 D-lactate dehydrogenase; Provisional; Region: PRK11183 634452005759 FAD binding domain; Region: FAD_binding_4; pfam01565 634452005760 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 634452005761 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 634452005762 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 634452005763 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 634452005764 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 634452005765 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 634452005766 Uncharacterized conserved protein [Function unknown]; Region: COG2308 634452005767 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 634452005768 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 634452005769 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 634452005770 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 634452005771 dimerization interface [polypeptide binding]; other site 634452005772 active site 634452005773 quinolinate synthetase; Provisional; Region: PRK09375 634452005774 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 634452005775 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634452005776 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634452005777 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 634452005778 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634452005779 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634452005780 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 634452005781 NAD(P) binding site [chemical binding]; other site 634452005782 catalytic residues [active] 634452005783 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 634452005784 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634452005785 putative substrate translocation pore; other site 634452005786 Domain of unknown function (DUF336); Region: DUF336; pfam03928 634452005787 Predicted flavoprotein [General function prediction only]; Region: COG0431 634452005788 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 634452005789 Pirin-related protein [General function prediction only]; Region: COG1741 634452005790 Pirin; Region: Pirin; pfam02678 634452005791 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 634452005792 LysR family transcriptional regulator; Provisional; Region: PRK14997 634452005793 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452005794 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 634452005795 putative effector binding pocket; other site 634452005796 putative dimerization interface [polypeptide binding]; other site 634452005797 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634452005798 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 634452005799 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634452005800 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 634452005801 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 634452005802 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634452005803 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 634452005804 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 634452005805 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 634452005806 D-galactonate transporter; Region: 2A0114; TIGR00893 634452005807 putative substrate translocation pore; other site 634452005808 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 634452005809 EamA-like transporter family; Region: EamA; cl17759 634452005810 EamA-like transporter family; Region: EamA; pfam00892 634452005811 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 634452005812 putative active site [active] 634452005813 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 634452005814 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 634452005815 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 634452005816 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 634452005817 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634452005818 NAD(P) binding site [chemical binding]; other site 634452005819 active site 634452005820 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 634452005821 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 634452005822 carboxyltransferase (CT) interaction site; other site 634452005823 biotinylation site [posttranslational modification]; other site 634452005824 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 634452005825 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 634452005826 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 634452005827 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 634452005828 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 634452005829 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 634452005830 carboxyltransferase (CT) interaction site; other site 634452005831 biotinylation site [posttranslational modification]; other site 634452005832 aspartate aminotransferase; Provisional; Region: PRK05764 634452005833 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 634452005834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452005835 homodimer interface [polypeptide binding]; other site 634452005836 catalytic residue [active] 634452005837 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 634452005838 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452005839 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 634452005840 putative dimerization interface [polypeptide binding]; other site 634452005841 amidase; Provisional; Region: PRK07056 634452005842 Amidase; Region: Amidase; cl11426 634452005843 short chain dehydrogenase; Provisional; Region: PRK09291 634452005844 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634452005845 NAD(P) binding site [chemical binding]; other site 634452005846 active site 634452005847 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 634452005848 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 634452005849 active site 634452005850 catalytic site [active] 634452005851 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 634452005852 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 634452005853 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 634452005854 catalytic site [active] 634452005855 active site 634452005856 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 634452005857 glycogen branching enzyme; Provisional; Region: PRK05402 634452005858 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 634452005859 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 634452005860 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 634452005861 active site 634452005862 catalytic site [active] 634452005863 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 634452005864 glycogen synthase; Provisional; Region: glgA; PRK00654 634452005865 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 634452005866 ADP-binding pocket [chemical binding]; other site 634452005867 homodimer interface [polypeptide binding]; other site 634452005868 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 634452005869 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 634452005870 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 634452005871 active site 634452005872 catalytic site [active] 634452005873 short chain dehydrogenase; Provisional; Region: PRK06701 634452005874 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634452005875 NAD(P) binding site [chemical binding]; other site 634452005876 active site 634452005877 thiamine pyrophosphate protein; Provisional; Region: PRK08273 634452005878 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 634452005879 PYR/PP interface [polypeptide binding]; other site 634452005880 dimer interface [polypeptide binding]; other site 634452005881 tetramer interface [polypeptide binding]; other site 634452005882 TPP binding site [chemical binding]; other site 634452005883 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634452005884 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 634452005885 TPP-binding site [chemical binding]; other site 634452005886 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 634452005887 Transposase; Region: HTH_Tnp_1; pfam01527 634452005888 HTH-like domain; Region: HTH_21; pfam13276 634452005889 Integrase core domain; Region: rve; pfam00665 634452005890 Integrase core domain; Region: rve_3; pfam13683 634452005891 FAD binding domain; Region: FAD_binding_3; pfam01494 634452005892 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 634452005893 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 634452005894 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 634452005895 Cu(I) binding site [ion binding]; other site 634452005896 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634452005897 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 634452005898 N-terminal plug; other site 634452005899 ligand-binding site [chemical binding]; other site 634452005900 Hint domain; Region: Hint_2; pfam13403 634452005901 HTH-like domain; Region: HTH_21; pfam13276 634452005902 Integrase core domain; Region: rve; pfam00665 634452005903 Integrase core domain; Region: rve_3; pfam13683 634452005904 Transposase; Region: HTH_Tnp_1; pfam01527 634452005905 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 634452005906 nudix motif; other site 634452005907 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452005908 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 634452005909 dimerization interface [polypeptide binding]; other site 634452005910 Fusaric acid resistance protein family; Region: FUSC; pfam04632 634452005911 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634452005912 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 634452005913 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 634452005914 Zinc-finger domain; Region: zf-CHCC; pfam10276 634452005915 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 634452005916 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 634452005917 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 634452005918 DsbD alpha interface [polypeptide binding]; other site 634452005919 catalytic residues [active] 634452005920 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 634452005921 seryl-tRNA synthetase; Provisional; Region: PRK05431 634452005922 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 634452005923 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 634452005924 dimer interface [polypeptide binding]; other site 634452005925 active site 634452005926 motif 1; other site 634452005927 motif 2; other site 634452005928 motif 3; other site 634452005929 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 634452005930 sec-independent translocase; Provisional; Region: tatB; PRK00182 634452005931 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 634452005932 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 634452005933 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 634452005934 Sporulation related domain; Region: SPOR; pfam05036 634452005935 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 634452005936 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 634452005937 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634452005938 active site 634452005939 HIGH motif; other site 634452005940 nucleotide binding site [chemical binding]; other site 634452005941 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 634452005942 KMSK motif region; other site 634452005943 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 634452005944 tRNA binding surface [nucleotide binding]; other site 634452005945 anticodon binding site; other site 634452005946 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 634452005947 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 634452005948 Zn2+ binding site [ion binding]; other site 634452005949 Mg2+ binding site [ion binding]; other site 634452005950 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 634452005951 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 634452005952 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 634452005953 putative catalytic site [active] 634452005954 putative phosphate binding site [ion binding]; other site 634452005955 active site 634452005956 metal binding site A [ion binding]; metal-binding site 634452005957 DNA binding site [nucleotide binding] 634452005958 putative AP binding site [nucleotide binding]; other site 634452005959 putative metal binding site B [ion binding]; other site 634452005960 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 634452005961 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 634452005962 active site 634452005963 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 634452005964 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 634452005965 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 634452005966 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 634452005967 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 634452005968 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 634452005969 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 634452005970 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 634452005971 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 634452005972 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 634452005973 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 634452005974 FeS/SAM binding site; other site 634452005975 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 634452005976 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 634452005977 dinuclear metal binding motif [ion binding]; other site 634452005978 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 634452005979 Clp protease; Region: CLP_protease; pfam00574 634452005980 oligomer interface [polypeptide binding]; other site 634452005981 active site residues [active] 634452005982 aminotransferase; Validated; Region: PRK09148 634452005983 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 634452005984 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452005985 homodimer interface [polypeptide binding]; other site 634452005986 catalytic residue [active] 634452005987 homoserine dehydrogenase; Provisional; Region: PRK06349 634452005988 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 634452005989 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 634452005990 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 634452005991 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 634452005992 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 634452005993 putative active site [active] 634452005994 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 634452005995 DHH family; Region: DHH; pfam01368 634452005996 DHHA1 domain; Region: DHHA1; pfam02272 634452005997 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 634452005998 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634452005999 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 634452006000 DNA binding residues [nucleotide binding] 634452006001 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 634452006002 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 634452006003 RNA binding surface [nucleotide binding]; other site 634452006004 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 634452006005 active site 634452006006 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 634452006007 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 634452006008 ABC-ATPase subunit interface; other site 634452006009 dimer interface [polypeptide binding]; other site 634452006010 putative PBP binding regions; other site 634452006011 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 634452006012 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 634452006013 Walker A/P-loop; other site 634452006014 ATP binding site [chemical binding]; other site 634452006015 Q-loop/lid; other site 634452006016 ABC transporter signature motif; other site 634452006017 Walker B; other site 634452006018 D-loop; other site 634452006019 H-loop/switch region; other site 634452006020 Uncharacterized conserved protein [Function unknown]; Region: COG0397 634452006021 hypothetical protein; Validated; Region: PRK00029 634452006022 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 634452006023 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 634452006024 homodimer interface [polypeptide binding]; other site 634452006025 substrate-cofactor binding pocket; other site 634452006026 catalytic residue [active] 634452006027 DNA polymerase I; Provisional; Region: PRK05755 634452006028 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 634452006029 active site 634452006030 metal binding site 1 [ion binding]; metal-binding site 634452006031 putative 5' ssDNA interaction site; other site 634452006032 metal binding site 3; metal-binding site 634452006033 metal binding site 2 [ion binding]; metal-binding site 634452006034 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 634452006035 putative DNA binding site [nucleotide binding]; other site 634452006036 putative metal binding site [ion binding]; other site 634452006037 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 634452006038 active site 634452006039 catalytic site [active] 634452006040 substrate binding site [chemical binding]; other site 634452006041 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 634452006042 active site 634452006043 DNA binding site [nucleotide binding] 634452006044 catalytic site [active] 634452006045 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 634452006046 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 634452006047 Cu(I) binding site [ion binding]; other site 634452006048 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 634452006049 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 634452006050 putative acyl-acceptor binding pocket; other site 634452006051 proline/glycine betaine transporter; Provisional; Region: PRK10642 634452006052 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 634452006053 putative substrate translocation pore; other site 634452006054 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452006055 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452006056 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 634452006057 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 634452006058 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 634452006059 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 634452006060 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 634452006061 L-asparagine permease; Provisional; Region: PRK15049 634452006062 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 634452006063 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 634452006064 Trp docking motif [polypeptide binding]; other site 634452006065 putative active site [active] 634452006066 Hint domain; Region: Hint_2; pfam13403 634452006067 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 634452006068 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 634452006069 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 634452006070 inhibitor-cofactor binding pocket; inhibition site 634452006071 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452006072 catalytic residue [active] 634452006073 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 634452006074 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 634452006075 DNA-binding site [nucleotide binding]; DNA binding site 634452006076 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 634452006077 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452006078 homodimer interface [polypeptide binding]; other site 634452006079 catalytic residue [active] 634452006080 allantoate amidohydrolase; Reviewed; Region: PRK09290 634452006081 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 634452006082 active site 634452006083 metal binding site [ion binding]; metal-binding site 634452006084 dimer interface [polypeptide binding]; other site 634452006085 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 634452006086 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 634452006087 homodimer interface [polypeptide binding]; other site 634452006088 active site 634452006089 FMN binding site [chemical binding]; other site 634452006090 substrate binding site [chemical binding]; other site 634452006091 4Fe-4S binding domain; Region: Fer4; pfam00037 634452006092 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 634452006093 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 634452006094 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 634452006095 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 634452006096 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634452006097 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 634452006098 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 634452006099 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 634452006100 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 634452006101 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 634452006102 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634452006103 Transposase; Region: HTH_Tnp_1; pfam01527 634452006104 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634452006105 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 634452006106 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 634452006107 phenylhydantoinase; Validated; Region: PRK08323 634452006108 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 634452006109 tetramer interface [polypeptide binding]; other site 634452006110 active site 634452006111 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 634452006112 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 634452006113 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 634452006114 putative substrate binding site [chemical binding]; other site 634452006115 Na binding site [ion binding]; other site 634452006116 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634452006117 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 634452006118 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 634452006119 active site 634452006120 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 634452006121 active site 634452006122 dimer interface [polypeptide binding]; other site 634452006123 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 634452006124 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634452006125 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 634452006126 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 634452006127 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 634452006128 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 634452006129 active site 634452006130 hydrophilic channel; other site 634452006131 catalytic residues [active] 634452006132 active site lid [active] 634452006133 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 634452006134 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 634452006135 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 634452006136 Na binding site [ion binding]; other site 634452006137 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 634452006138 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 634452006139 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 634452006140 Beta-lactamase; Region: Beta-lactamase; pfam00144 634452006141 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 634452006142 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 634452006143 non-specific DNA binding site [nucleotide binding]; other site 634452006144 salt bridge; other site 634452006145 sequence-specific DNA binding site [nucleotide binding]; other site 634452006146 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 634452006147 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 634452006148 heme-binding site [chemical binding]; other site 634452006149 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 634452006150 FAD binding pocket [chemical binding]; other site 634452006151 FAD binding motif [chemical binding]; other site 634452006152 phosphate binding motif [ion binding]; other site 634452006153 beta-alpha-beta structure motif; other site 634452006154 NAD binding pocket [chemical binding]; other site 634452006155 Heme binding pocket [chemical binding]; other site 634452006156 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 634452006157 dimer interface [polypeptide binding]; other site 634452006158 conserved gate region; other site 634452006159 putative PBP binding loops; other site 634452006160 ABC-ATPase subunit interface; other site 634452006161 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 634452006162 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 634452006163 Walker A/P-loop; other site 634452006164 ATP binding site [chemical binding]; other site 634452006165 Q-loop/lid; other site 634452006166 ABC transporter signature motif; other site 634452006167 Walker B; other site 634452006168 D-loop; other site 634452006169 H-loop/switch region; other site 634452006170 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 634452006171 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 634452006172 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 634452006173 FAD binding domain; Region: FAD_binding_4; pfam01565 634452006174 siroheme synthase; Provisional; Region: cysG; PRK10637 634452006175 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 634452006176 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 634452006177 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 634452006178 active site 634452006179 SAM binding site [chemical binding]; other site 634452006180 homodimer interface [polypeptide binding]; other site 634452006181 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 634452006182 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 634452006183 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 634452006184 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 634452006185 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 634452006186 Amidase; Region: Amidase; cl11426 634452006187 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 634452006188 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 634452006189 intersubunit interface [polypeptide binding]; other site 634452006190 active site 634452006191 Zn2+ binding site [ion binding]; other site 634452006192 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 634452006193 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 634452006194 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 634452006195 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 634452006196 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 634452006197 FMN-binding pocket [chemical binding]; other site 634452006198 flavin binding motif; other site 634452006199 phosphate binding motif [ion binding]; other site 634452006200 beta-alpha-beta structure motif; other site 634452006201 NAD binding pocket [chemical binding]; other site 634452006202 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 634452006203 catalytic loop [active] 634452006204 iron binding site [ion binding]; other site 634452006205 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 634452006206 classical (c) SDRs; Region: SDR_c; cd05233 634452006207 NAD(P) binding site [chemical binding]; other site 634452006208 active site 634452006209 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 634452006210 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 634452006211 [2Fe-2S] cluster binding site [ion binding]; other site 634452006212 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 634452006213 putative alpha subunit interface [polypeptide binding]; other site 634452006214 putative active site [active] 634452006215 putative substrate binding site [chemical binding]; other site 634452006216 Fe binding site [ion binding]; other site 634452006217 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 634452006218 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 634452006219 active site 634452006220 Carbohydrate-selective porin, OprB family; Region: OprB; cl17816 634452006221 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 634452006222 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634452006223 NAD(P) binding site [chemical binding]; other site 634452006224 catalytic residues [active] 634452006225 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 634452006226 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 634452006227 Trp docking motif [polypeptide binding]; other site 634452006228 cytochrome domain interface [polypeptide binding]; other site 634452006229 active site 634452006230 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 634452006231 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 634452006232 putative substrate translocation pore; other site 634452006233 SnoaL-like domain; Region: SnoaL_4; pfam13577 634452006234 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634452006235 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452006236 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 634452006237 putative substrate binding pocket [chemical binding]; other site 634452006238 dimerization interface [polypeptide binding]; other site 634452006239 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 634452006240 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 634452006241 dimer interface [polypeptide binding]; other site 634452006242 conserved gate region; other site 634452006243 putative PBP binding loops; other site 634452006244 ABC-ATPase subunit interface; other site 634452006245 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 634452006246 ABC-ATPase subunit interface; other site 634452006247 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452006248 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452006249 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634452006250 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 634452006251 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 634452006252 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 634452006253 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 634452006254 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452006255 Walker A/P-loop; other site 634452006256 ATP binding site [chemical binding]; other site 634452006257 Q-loop/lid; other site 634452006258 ABC transporter signature motif; other site 634452006259 Walker B; other site 634452006260 D-loop; other site 634452006261 H-loop/switch region; other site 634452006262 TOBE domain; Region: TOBE_2; pfam08402 634452006263 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 634452006264 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 634452006265 tetrameric interface [polypeptide binding]; other site 634452006266 NAD binding site [chemical binding]; other site 634452006267 catalytic residues [active] 634452006268 substrate binding site [chemical binding]; other site 634452006269 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 634452006270 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 634452006271 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 634452006272 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 634452006273 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 634452006274 Sel1-like repeats; Region: SEL1; smart00671 634452006275 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634452006276 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 634452006277 N-terminal plug; other site 634452006278 ligand-binding site [chemical binding]; other site 634452006279 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 634452006280 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634452006281 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 634452006282 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 634452006283 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634452006284 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452006285 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634452006286 LysR substrate binding domain; Region: LysR_substrate; pfam03466 634452006287 dimerization interface [polypeptide binding]; other site 634452006288 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 634452006289 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 634452006290 [2Fe-2S] cluster binding site [ion binding]; other site 634452006291 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 634452006292 hydrophobic ligand binding site; other site 634452006293 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 634452006294 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 634452006295 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634452006296 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 634452006297 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 634452006298 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 634452006299 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 634452006300 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634452006301 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 634452006302 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634452006303 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 634452006304 tetramerization interface [polypeptide binding]; other site 634452006305 NAD(P) binding site [chemical binding]; other site 634452006306 catalytic residues [active] 634452006307 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 634452006308 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 634452006309 putative substrate translocation pore; other site 634452006310 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 634452006311 homotrimer interface [polypeptide binding]; other site 634452006312 Walker A motif; other site 634452006313 GTP binding site [chemical binding]; other site 634452006314 Walker B motif; other site 634452006315 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 634452006316 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 634452006317 putative dimer interface [polypeptide binding]; other site 634452006318 active site pocket [active] 634452006319 putative cataytic base [active] 634452006320 cobalamin synthase; Reviewed; Region: cobS; PRK00235 634452006321 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 634452006322 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 634452006323 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452006324 homodimer interface [polypeptide binding]; other site 634452006325 catalytic residue [active] 634452006326 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 634452006327 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 634452006328 putative FMN binding site [chemical binding]; other site 634452006329 cobyric acid synthase; Provisional; Region: PRK00784 634452006330 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 634452006331 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 634452006332 catalytic triad [active] 634452006333 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 634452006334 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 634452006335 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 634452006336 homodimer interface [polypeptide binding]; other site 634452006337 Walker A motif; other site 634452006338 ATP binding site [chemical binding]; other site 634452006339 hydroxycobalamin binding site [chemical binding]; other site 634452006340 Walker B motif; other site 634452006341 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 634452006342 catalytic core [active] 634452006343 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 634452006344 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 634452006345 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 634452006346 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 634452006347 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 634452006348 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 634452006349 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 634452006350 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 634452006351 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 634452006352 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 634452006353 dimer interface [polypeptide binding]; other site 634452006354 [2Fe-2S] cluster binding site [ion binding]; other site 634452006355 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 634452006356 MarR family; Region: MarR; pfam01047 634452006357 Fusaric acid resistance protein family; Region: FUSC; pfam04632 634452006358 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634452006359 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 634452006360 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 634452006361 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 634452006362 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 634452006363 substrate binding site [chemical binding]; other site 634452006364 oxyanion hole (OAH) forming residues; other site 634452006365 trimer interface [polypeptide binding]; other site 634452006366 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 634452006367 Flavin Reductases; Region: FlaRed; cl00801 634452006368 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 634452006369 dimer interface [polypeptide binding]; other site 634452006370 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 634452006371 putative PBP binding regions; other site 634452006372 ABC-ATPase subunit interface; other site 634452006373 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 634452006374 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452006375 Walker A/P-loop; other site 634452006376 ATP binding site [chemical binding]; other site 634452006377 Q-loop/lid; other site 634452006378 ABC transporter signature motif; other site 634452006379 Walker B; other site 634452006380 D-loop; other site 634452006381 H-loop/switch region; other site 634452006382 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 634452006383 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 634452006384 intersubunit interface [polypeptide binding]; other site 634452006385 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 634452006386 metal binding site 2 [ion binding]; metal-binding site 634452006387 putative DNA binding helix; other site 634452006388 metal binding site 1 [ion binding]; metal-binding site 634452006389 dimer interface [polypeptide binding]; other site 634452006390 structural Zn2+ binding site [ion binding]; other site 634452006391 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 634452006392 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 634452006393 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 634452006394 putative deacylase active site [active] 634452006395 Uncharacterized protein conserved in bacteria (DUF2272); Region: DUF2272; pfam10030 634452006396 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 634452006397 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 634452006398 dimer interface [polypeptide binding]; other site 634452006399 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452006400 catalytic residue [active] 634452006401 GMP synthase; Reviewed; Region: guaA; PRK00074 634452006402 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 634452006403 AMP/PPi binding site [chemical binding]; other site 634452006404 candidate oxyanion hole; other site 634452006405 catalytic triad [active] 634452006406 potential glutamine specificity residues [chemical binding]; other site 634452006407 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 634452006408 ATP Binding subdomain [chemical binding]; other site 634452006409 Ligand Binding sites [chemical binding]; other site 634452006410 Dimerization subdomain; other site 634452006411 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634452006412 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 634452006413 catalytic residues [active] 634452006414 catalytic nucleophile [active] 634452006415 Presynaptic Site I dimer interface [polypeptide binding]; other site 634452006416 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634452006417 Synaptic Flat tetramer interface [polypeptide binding]; other site 634452006418 Synaptic Site I dimer interface [polypeptide binding]; other site 634452006419 DNA binding site [nucleotide binding] 634452006420 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 634452006421 DNA-binding interface [nucleotide binding]; DNA binding site 634452006422 Domain of unknown function (DUF927); Region: DUF927; pfam06048 634452006423 Toprim domain; Region: Toprim_3; pfam13362 634452006424 Helix-turn-helix domain; Region: HTH_17; pfam12728 634452006425 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634452006426 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452006427 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452006428 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 634452006429 salt bridge; other site 634452006430 non-specific DNA binding site [nucleotide binding]; other site 634452006431 sequence-specific DNA binding site [nucleotide binding]; other site 634452006432 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452006433 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452006434 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 634452006435 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 634452006436 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 634452006437 DNA binding residues [nucleotide binding] 634452006438 HNH endonuclease; Region: HNH_2; pfam13391 634452006439 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 634452006440 active site 634452006441 DNA binding site [nucleotide binding] 634452006442 Int/Topo IB signature motif; other site 634452006443 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 634452006444 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 634452006445 putative substrate translocation pore; other site 634452006446 Phage shock protein B; Region: PspB; cl05946 634452006447 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 634452006448 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 634452006449 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 634452006450 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634452006451 catalytic residue [active] 634452006452 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 634452006453 L-lactate permease; Region: Lactate_perm; cl00701 634452006454 Uncharacterized conserved protein [Function unknown]; Region: COG1359 634452006455 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 634452006456 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 634452006457 NADP binding site [chemical binding]; other site 634452006458 homopentamer interface [polypeptide binding]; other site 634452006459 substrate binding site [chemical binding]; other site 634452006460 active site 634452006461 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 634452006462 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 634452006463 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 634452006464 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 634452006465 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 634452006466 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 634452006467 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634452006468 catalytic residue [active] 634452006469 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 634452006470 Sporulation related domain; Region: SPOR; pfam05036 634452006471 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 634452006472 ABC-2 type transporter; Region: ABC2_membrane; cl17235 634452006473 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 634452006474 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 634452006475 Walker A/P-loop; other site 634452006476 ATP binding site [chemical binding]; other site 634452006477 Q-loop/lid; other site 634452006478 ABC transporter signature motif; other site 634452006479 Walker B; other site 634452006480 D-loop; other site 634452006481 H-loop/switch region; other site 634452006482 Uncharacterized conserved protein [Function unknown]; Region: COG1742 634452006483 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 634452006484 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 634452006485 Cl binding site [ion binding]; other site 634452006486 oligomer interface [polypeptide binding]; other site 634452006487 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 634452006488 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 634452006489 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452006490 homodimer interface [polypeptide binding]; other site 634452006491 catalytic residue [active] 634452006492 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 634452006493 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 634452006494 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 634452006495 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 634452006496 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 634452006497 TPP-binding site [chemical binding]; other site 634452006498 dimer interface [polypeptide binding]; other site 634452006499 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 634452006500 PYR/PP interface [polypeptide binding]; other site 634452006501 dimer interface [polypeptide binding]; other site 634452006502 TPP binding site [chemical binding]; other site 634452006503 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634452006504 bifunctional transaldolase/phosoglucose isomerase; Validated; Region: PRK09533 634452006505 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 634452006506 putative active site [active] 634452006507 catalytic residue [active] 634452006508 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 634452006509 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 634452006510 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 634452006511 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 634452006512 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 634452006513 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 634452006514 active site 634452006515 motif I; other site 634452006516 motif II; other site 634452006517 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 634452006518 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 634452006519 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 634452006520 putative active site [active] 634452006521 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 634452006522 tetramer (dimer of dimers) interface [polypeptide binding]; other site 634452006523 active site 634452006524 dimer interface [polypeptide binding]; other site 634452006525 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 634452006526 AAA domain; Region: AAA_33; pfam13671 634452006527 ATP-binding site [chemical binding]; other site 634452006528 Gluconate-6-phosphate binding site [chemical binding]; other site 634452006529 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 634452006530 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 634452006531 intersubunit interface [polypeptide binding]; other site 634452006532 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 634452006533 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 634452006534 Cl- selectivity filter; other site 634452006535 Cl- binding residues [ion binding]; other site 634452006536 pore gating glutamate residue; other site 634452006537 dimer interface [polypeptide binding]; other site 634452006538 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 634452006539 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 634452006540 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 634452006541 NAD(P) binding site [chemical binding]; other site 634452006542 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 634452006543 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 634452006544 catalytic residue [active] 634452006545 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 634452006546 potassium uptake protein; Region: kup; TIGR00794 634452006547 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 634452006548 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 634452006549 FeS/SAM binding site; other site 634452006550 HemN C-terminal domain; Region: HemN_C; pfam06969 634452006551 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 634452006552 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 634452006553 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 634452006554 Walker A/P-loop; other site 634452006555 ATP binding site [chemical binding]; other site 634452006556 Q-loop/lid; other site 634452006557 ABC transporter signature motif; other site 634452006558 Walker B; other site 634452006559 D-loop; other site 634452006560 H-loop/switch region; other site 634452006561 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 634452006562 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 634452006563 Walker A/P-loop; other site 634452006564 ATP binding site [chemical binding]; other site 634452006565 Q-loop/lid; other site 634452006566 ABC transporter signature motif; other site 634452006567 Walker B; other site 634452006568 D-loop; other site 634452006569 H-loop/switch region; other site 634452006570 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 634452006571 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 634452006572 TM-ABC transporter signature motif; other site 634452006573 HEAT repeats; Region: HEAT_2; pfam13646 634452006574 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 634452006575 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 634452006576 TM-ABC transporter signature motif; other site 634452006577 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 634452006578 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 634452006579 putative ligand binding site [chemical binding]; other site 634452006580 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 634452006581 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634452006582 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 634452006583 dimer interface [polypeptide binding]; other site 634452006584 phosphorylation site [posttranslational modification] 634452006585 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 634452006586 ATP binding site [chemical binding]; other site 634452006587 Mg2+ binding site [ion binding]; other site 634452006588 G-X-G motif; other site 634452006589 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 634452006590 Response regulator receiver domain; Region: Response_reg; pfam00072 634452006591 active site 634452006592 phosphorylation site [posttranslational modification] 634452006593 intermolecular recognition site; other site 634452006594 dimerization interface [polypeptide binding]; other site 634452006595 Response regulator receiver domain; Region: Response_reg; pfam00072 634452006596 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 634452006597 active site 634452006598 phosphorylation site [posttranslational modification] 634452006599 intermolecular recognition site; other site 634452006600 dimerization interface [polypeptide binding]; other site 634452006601 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 634452006602 DNA binding residues [nucleotide binding] 634452006603 HTH-like domain; Region: HTH_21; pfam13276 634452006604 Integrase core domain; Region: rve; pfam00665 634452006605 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452006606 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 634452006607 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 634452006608 UreF; Region: UreF; pfam01730 634452006609 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 634452006610 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 634452006611 dimer interface [polypeptide binding]; other site 634452006612 catalytic residues [active] 634452006613 urease subunit alpha; Reviewed; Region: ureC; PRK13207 634452006614 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 634452006615 subunit interactions [polypeptide binding]; other site 634452006616 active site 634452006617 flap region; other site 634452006618 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 634452006619 alpha-beta subunit interface [polypeptide binding]; other site 634452006620 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 634452006621 alpha-gamma subunit interface [polypeptide binding]; other site 634452006622 beta-gamma subunit interface [polypeptide binding]; other site 634452006623 UreD urease accessory protein; Region: UreD; pfam01774 634452006624 High-affinity nickel-transport protein; Region: NicO; cl00964 634452006625 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 634452006626 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 634452006627 dimer interface [polypeptide binding]; other site 634452006628 PYR/PP interface [polypeptide binding]; other site 634452006629 TPP binding site [chemical binding]; other site 634452006630 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634452006631 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 634452006632 TPP-binding site [chemical binding]; other site 634452006633 dimer interface [polypeptide binding]; other site 634452006634 Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]; Region: phoE; COG0406 634452006635 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 634452006636 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 634452006637 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 634452006638 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 634452006639 heme binding site [chemical binding]; other site 634452006640 ferroxidase pore; other site 634452006641 ferroxidase diiron center [ion binding]; other site 634452006642 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 634452006643 ArsC family; Region: ArsC; pfam03960 634452006644 putative catalytic residues [active] 634452006645 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 634452006646 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 634452006647 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 634452006648 dimerization interface [polypeptide binding]; other site 634452006649 putative DNA binding site [nucleotide binding]; other site 634452006650 putative Zn2+ binding site [ion binding]; other site 634452006651 peroxiredoxin; Provisional; Region: PRK13189 634452006652 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 634452006653 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 634452006654 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 634452006655 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 634452006656 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 634452006657 Sulfate transporter family; Region: Sulfate_transp; pfam00916 634452006658 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 634452006659 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 634452006660 catalytic residues [active] 634452006661 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452006662 Pirin-related protein [General function prediction only]; Region: COG1741 634452006663 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 634452006664 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 634452006665 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634452006666 HlyD family secretion protein; Region: HlyD_3; pfam13437 634452006667 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 634452006668 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 634452006669 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634452006670 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452006671 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 634452006672 putative dimerization interface [polypeptide binding]; other site 634452006673 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452006674 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634452006675 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 634452006676 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 634452006677 putative substrate translocation pore; other site 634452006678 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452006679 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452006680 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 634452006681 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 634452006682 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 634452006683 Isochorismatase family; Region: Isochorismatase; pfam00857 634452006684 catalytic triad [active] 634452006685 conserved cis-peptide bond; other site 634452006686 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634452006687 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 634452006688 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634452006689 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 634452006690 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634452006691 Cytochrome c; Region: Cytochrom_C; pfam00034 634452006692 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634452006693 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 634452006694 Cytochrome c; Region: Cytochrom_C; pfam00034 634452006695 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 634452006696 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 634452006697 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 634452006698 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 634452006699 Transcriptional regulators [Transcription]; Region: MarR; COG1846 634452006700 MarR family; Region: MarR_2; pfam12802 634452006701 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452006702 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 634452006703 active site 634452006704 catalytic triad [active] 634452006705 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 634452006706 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 634452006707 Walker A motif; other site 634452006708 ATP binding site [chemical binding]; other site 634452006709 Walker B motif; other site 634452006710 arginine finger; other site 634452006711 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 634452006712 putative transposase OrfB; Reviewed; Region: PHA02517 634452006713 HTH-like domain; Region: HTH_21; pfam13276 634452006714 Integrase core domain; Region: rve; pfam00665 634452006715 Integrase core domain; Region: rve_3; pfam13683 634452006716 Transposase; Region: HTH_Tnp_1; cl17663 634452006717 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 634452006718 conjugal transfer protein TrbF; Provisional; Region: PRK13872 634452006719 conjugal transfer protein TrbL; Provisional; Region: PRK13875 634452006720 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 634452006721 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452006722 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 634452006723 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 634452006724 catalytic residues [active] 634452006725 catalytic nucleophile [active] 634452006726 Recombinase; Region: Recombinase; pfam07508 634452006727 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 634452006728 non-specific DNA binding site [nucleotide binding]; other site 634452006729 salt bridge; other site 634452006730 sequence-specific DNA binding site [nucleotide binding]; other site 634452006731 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 634452006732 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452006733 putative transposase OrfB; Reviewed; Region: PHA02517 634452006734 HTH-like domain; Region: HTH_21; pfam13276 634452006735 Integrase core domain; Region: rve; pfam00665 634452006736 Integrase core domain; Region: rve_3; pfam13683 634452006737 Transposase; Region: HTH_Tnp_1; cl17663 634452006738 Uncharacterized conserved protein (DUF2285); Region: DUF2285; pfam10074 634452006739 Replication initiator protein A; Region: RPA; pfam10134 634452006740 putative transposase OrfB; Reviewed; Region: PHA02517 634452006741 HTH-like domain; Region: HTH_21; pfam13276 634452006742 Integrase core domain; Region: rve; pfam00665 634452006743 Integrase core domain; Region: rve_3; pfam13683 634452006744 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452006745 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634452006746 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 634452006747 NAD(P) binding site [chemical binding]; other site 634452006748 active site 634452006749 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 634452006750 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 634452006751 Protein required for attachment to host cells; Region: Host_attach; pfam10116 634452006752 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 634452006753 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 634452006754 XdhC Rossmann domain; Region: XdhC_C; pfam13478 634452006755 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 634452006756 Ligand binding site; other site 634452006757 metal-binding site 634452006758 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 634452006759 homotrimer interaction site [polypeptide binding]; other site 634452006760 putative active site [active] 634452006761 CHAP domain; Region: CHAP; cl17642 634452006762 glycine dehydrogenase; Provisional; Region: PRK05367 634452006763 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 634452006764 tetramer interface [polypeptide binding]; other site 634452006765 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452006766 catalytic residue [active] 634452006767 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 634452006768 tetramer interface [polypeptide binding]; other site 634452006769 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452006770 catalytic residue [active] 634452006771 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 634452006772 lipoyl attachment site [posttranslational modification]; other site 634452006773 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 634452006774 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 634452006775 spermidine synthase; Provisional; Region: PRK00811 634452006776 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 634452006777 S-adenosylmethionine binding site [chemical binding]; other site 634452006778 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 634452006779 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634452006780 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452006781 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 634452006782 putative effector binding pocket; other site 634452006783 dimerization interface [polypeptide binding]; other site 634452006784 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 634452006785 active site 634452006786 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 634452006787 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 634452006788 active site 634452006789 (T/H)XGH motif; other site 634452006790 DNA gyrase, A subunit; Region: gyrA; TIGR01063 634452006791 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 634452006792 CAP-like domain; other site 634452006793 active site 634452006794 primary dimer interface [polypeptide binding]; other site 634452006795 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634452006796 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634452006797 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634452006798 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634452006799 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 634452006800 FMN binding site [chemical binding]; other site 634452006801 substrate binding site [chemical binding]; other site 634452006802 putative catalytic residue [active] 634452006803 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 634452006804 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 634452006805 RNase E interface [polypeptide binding]; other site 634452006806 trimer interface [polypeptide binding]; other site 634452006807 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 634452006808 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 634452006809 RNase E interface [polypeptide binding]; other site 634452006810 trimer interface [polypeptide binding]; other site 634452006811 active site 634452006812 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 634452006813 putative nucleic acid binding region [nucleotide binding]; other site 634452006814 G-X-X-G motif; other site 634452006815 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 634452006816 RNA binding site [nucleotide binding]; other site 634452006817 domain interface; other site 634452006818 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 634452006819 16S/18S rRNA binding site [nucleotide binding]; other site 634452006820 S13e-L30e interaction site [polypeptide binding]; other site 634452006821 25S rRNA binding site [nucleotide binding]; other site 634452006822 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 634452006823 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 634452006824 RNA binding site [nucleotide binding]; other site 634452006825 active site 634452006826 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 634452006827 Permease; Region: Permease; pfam02405 634452006828 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 634452006829 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 634452006830 Walker A/P-loop; other site 634452006831 ATP binding site [chemical binding]; other site 634452006832 Q-loop/lid; other site 634452006833 ABC transporter signature motif; other site 634452006834 Walker B; other site 634452006835 D-loop; other site 634452006836 H-loop/switch region; other site 634452006837 mce related protein; Region: MCE; pfam02470 634452006838 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 634452006839 Protein of unknown function (DUF330); Region: DUF330; pfam03886 634452006840 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634452006841 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 634452006842 putative ADP-binding pocket [chemical binding]; other site 634452006843 Clostridial hydrophobic W; Region: ChW; cl02763 634452006844 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 634452006845 binding surface 634452006846 TPR motif; other site 634452006847 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 634452006848 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 634452006849 active site 634452006850 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 634452006851 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634452006852 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634452006853 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 634452006854 Sel1-like repeats; Region: SEL1; smart00671 634452006855 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 634452006856 Sel1-like repeats; Region: SEL1; smart00671 634452006857 Sel1-like repeats; Region: SEL1; smart00671 634452006858 Sel1 repeat; Region: Sel1; cl02723 634452006859 Sel1-like repeats; Region: SEL1; smart00671 634452006860 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 634452006861 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634452006862 HlyD family secretion protein; Region: HlyD_3; pfam13437 634452006863 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 634452006864 putative active site [active] 634452006865 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 634452006866 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634452006867 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452006868 Walker A/P-loop; other site 634452006869 ATP binding site [chemical binding]; other site 634452006870 Q-loop/lid; other site 634452006871 ABC transporter signature motif; other site 634452006872 Walker B; other site 634452006873 D-loop; other site 634452006874 H-loop/switch region; other site 634452006875 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 634452006876 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 634452006877 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 634452006878 substrate binding pocket [chemical binding]; other site 634452006879 dimer interface [polypeptide binding]; other site 634452006880 inhibitor binding site; inhibition site 634452006881 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 634452006882 B12 binding site [chemical binding]; other site 634452006883 cobalt ligand [ion binding]; other site 634452006884 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 634452006885 Colicin V production protein; Region: Colicin_V; pfam02674 634452006886 amidophosphoribosyltransferase; Provisional; Region: PRK09123 634452006887 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 634452006888 active site 634452006889 tetramer interface [polypeptide binding]; other site 634452006890 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634452006891 active site 634452006892 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 634452006893 Protein of unknown function (DUF330); Region: DUF330; pfam03886 634452006894 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 634452006895 mce related protein; Region: MCE; pfam02470 634452006896 mce related protein; Region: MCE; pfam02470 634452006897 mce related protein; Region: MCE; pfam02470 634452006898 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 634452006899 Paraquat-inducible protein A; Region: PqiA; pfam04403 634452006900 Paraquat-inducible protein A; Region: PqiA; pfam04403 634452006901 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 634452006902 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 634452006903 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 634452006904 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 634452006905 active site 634452006906 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 634452006907 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 634452006908 ATP synthase subunit C; Region: ATP-synt_C; cl00466 634452006909 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 634452006910 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 634452006911 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 634452006912 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 634452006913 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 634452006914 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 634452006915 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 634452006916 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 634452006917 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 634452006918 FeS/SAM binding site; other site 634452006919 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 634452006920 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 634452006921 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 634452006922 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 634452006923 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 634452006924 dimer interface [polypeptide binding]; other site 634452006925 active site 634452006926 metal binding site [ion binding]; metal-binding site 634452006927 glutathione binding site [chemical binding]; other site 634452006928 DEAD-like helicases superfamily; Region: DEXDc; smart00487 634452006929 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 634452006930 ATP binding site [chemical binding]; other site 634452006931 Mg++ binding site [ion binding]; other site 634452006932 motif III; other site 634452006933 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 634452006934 nucleotide binding region [chemical binding]; other site 634452006935 ATP-binding site [chemical binding]; other site 634452006936 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 634452006937 RNA binding site [nucleotide binding]; other site 634452006938 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 634452006939 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 634452006940 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 634452006941 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 634452006942 23S rRNA interface [nucleotide binding]; other site 634452006943 L3 interface [polypeptide binding]; other site 634452006944 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634452006945 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 634452006946 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634452006947 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 634452006948 PhoU domain; Region: PhoU; pfam01895 634452006949 PhoU domain; Region: PhoU; pfam01895 634452006950 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 634452006951 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 634452006952 Walker A/P-loop; other site 634452006953 ATP binding site [chemical binding]; other site 634452006954 Q-loop/lid; other site 634452006955 ABC transporter signature motif; other site 634452006956 Walker B; other site 634452006957 D-loop; other site 634452006958 H-loop/switch region; other site 634452006959 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 634452006960 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 634452006961 dimer interface [polypeptide binding]; other site 634452006962 conserved gate region; other site 634452006963 putative PBP binding loops; other site 634452006964 ABC-ATPase subunit interface; other site 634452006965 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 634452006966 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 634452006967 dimer interface [polypeptide binding]; other site 634452006968 conserved gate region; other site 634452006969 putative PBP binding loops; other site 634452006970 ABC-ATPase subunit interface; other site 634452006971 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 634452006972 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 634452006973 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 634452006974 NADP binding site [chemical binding]; other site 634452006975 dimer interface [polypeptide binding]; other site 634452006976 Predicted membrane protein [Function unknown]; Region: COG1289 634452006977 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 634452006978 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 634452006979 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 634452006980 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 634452006981 protein binding site [polypeptide binding]; other site 634452006982 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 634452006983 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 634452006984 active site 634452006985 catalytic triad [active] 634452006986 oxyanion hole [active] 634452006987 OpgC protein; Region: OpgC_C; pfam10129 634452006988 Acyltransferase family; Region: Acyl_transf_3; pfam01757 634452006989 antiporter inner membrane protein; Provisional; Region: PRK11670 634452006990 Domain of unknown function DUF59; Region: DUF59; pfam01883 634452006991 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 634452006992 Walker A motif; other site 634452006993 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 634452006994 Stringent starvation protein B; Region: SspB; cl01120 634452006995 fumarate hydratase; Provisional; Region: PRK15389 634452006996 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 634452006997 Fumarase C-terminus; Region: Fumerase_C; pfam05683 634452006998 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 634452006999 dimer interface [polypeptide binding]; other site 634452007000 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 634452007001 metal binding site [ion binding]; metal-binding site 634452007002 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 634452007003 AntA/AntB antirepressor; Region: AntA; cl01430 634452007004 Putative glucoamylase; Region: Glycoamylase; pfam10091 634452007005 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 634452007006 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634452007007 hydroxyglutarate oxidase; Provisional; Region: PRK11728 634452007008 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 634452007009 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 634452007010 active site 634452007011 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 634452007012 dimer interface [polypeptide binding]; other site 634452007013 substrate binding site [chemical binding]; other site 634452007014 catalytic residues [active] 634452007015 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 634452007016 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 634452007017 putative DNA binding site [nucleotide binding]; other site 634452007018 putative Zn2+ binding site [ion binding]; other site 634452007019 AsnC family; Region: AsnC_trans_reg; pfam01037 634452007020 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 634452007021 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 634452007022 translation initiation factor IF-2; Region: IF-2; TIGR00487 634452007023 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 634452007024 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 634452007025 G1 box; other site 634452007026 putative GEF interaction site [polypeptide binding]; other site 634452007027 GTP/Mg2+ binding site [chemical binding]; other site 634452007028 Switch I region; other site 634452007029 G2 box; other site 634452007030 G3 box; other site 634452007031 Switch II region; other site 634452007032 G4 box; other site 634452007033 G5 box; other site 634452007034 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 634452007035 Translation-initiation factor 2; Region: IF-2; pfam11987 634452007036 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 634452007037 hypothetical protein; Provisional; Region: PRK09190 634452007038 Protein of unknown function (DUF448); Region: DUF448; pfam04296 634452007039 putative RNA binding cleft [nucleotide binding]; other site 634452007040 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 634452007041 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 634452007042 NusA N-terminal domain; Region: NusA_N; pfam08529 634452007043 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 634452007044 RNA binding site [nucleotide binding]; other site 634452007045 homodimer interface [polypeptide binding]; other site 634452007046 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 634452007047 G-X-X-G motif; other site 634452007048 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 634452007049 G-X-X-G motif; other site 634452007050 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 634452007051 hypothetical protein; Provisional; Region: PRK14636 634452007052 Sm and related proteins; Region: Sm_like; cl00259 634452007053 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 634452007054 putative RNA binding site [nucleotide binding]; other site 634452007055 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 634452007056 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 634452007057 Walker A motif; other site 634452007058 ATP binding site [chemical binding]; other site 634452007059 Walker B motif; other site 634452007060 arginine finger; other site 634452007061 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634452007062 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452007063 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 634452007064 putative effector binding pocket; other site 634452007065 dimerization interface [polypeptide binding]; other site 634452007066 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 634452007067 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 634452007068 substrate binding pocket [chemical binding]; other site 634452007069 membrane-bound complex binding site; other site 634452007070 hinge residues; other site 634452007071 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 634452007072 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 634452007073 dimer interface [polypeptide binding]; other site 634452007074 conserved gate region; other site 634452007075 putative PBP binding loops; other site 634452007076 ABC-ATPase subunit interface; other site 634452007077 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 634452007078 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452007079 Walker A/P-loop; other site 634452007080 ATP binding site [chemical binding]; other site 634452007081 Q-loop/lid; other site 634452007082 ABC transporter signature motif; other site 634452007083 Walker B; other site 634452007084 D-loop; other site 634452007085 H-loop/switch region; other site 634452007086 aconitate hydratase; Validated; Region: PRK09277 634452007087 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 634452007088 substrate binding site [chemical binding]; other site 634452007089 ligand binding site [chemical binding]; other site 634452007090 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 634452007091 substrate binding site [chemical binding]; other site 634452007092 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 634452007093 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452007094 Walker A/P-loop; other site 634452007095 ATP binding site [chemical binding]; other site 634452007096 Q-loop/lid; other site 634452007097 ABC transporter signature motif; other site 634452007098 Walker B; other site 634452007099 D-loop; other site 634452007100 H-loop/switch region; other site 634452007101 CcmB protein; Region: CcmB; pfam03379 634452007102 hypothetical protein; Provisional; Region: PRK10316 634452007103 YfdX protein; Region: YfdX; pfam10938 634452007104 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 634452007105 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 634452007106 dimer interface [polypeptide binding]; other site 634452007107 active site 634452007108 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 634452007109 catalytic residues [active] 634452007110 substrate binding site [chemical binding]; other site 634452007111 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 634452007112 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 634452007113 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 634452007114 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 634452007115 Dehydroquinase class II; Region: DHquinase_II; pfam01220 634452007116 trimer interface [polypeptide binding]; other site 634452007117 active site 634452007118 dimer interface [polypeptide binding]; other site 634452007119 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 634452007120 carboxyltransferase (CT) interaction site; other site 634452007121 biotinylation site [posttranslational modification]; other site 634452007122 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 634452007123 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 634452007124 ATP-grasp domain; Region: ATP-grasp_4; cl17255 634452007125 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 634452007126 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 634452007127 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 634452007128 putative substrate translocation pore; other site 634452007129 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 634452007130 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 634452007131 ThiC-associated domain; Region: ThiC-associated; pfam13667 634452007132 ThiC family; Region: ThiC; pfam01964 634452007133 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 634452007134 Iron permease FTR1 family; Region: FTR1; cl00475 634452007135 Fe2+ transport protein; Region: Iron_transport; cl01377 634452007136 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634452007137 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 634452007138 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 634452007139 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634452007140 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 634452007141 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452007142 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 634452007143 dimerization interface [polypeptide binding]; other site 634452007144 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 634452007145 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 634452007146 inhibitor-cofactor binding pocket; inhibition site 634452007147 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452007148 catalytic residue [active] 634452007149 Synuclein; Region: Synuclein; pfam01387 634452007150 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 634452007151 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 634452007152 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 634452007153 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 634452007154 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 634452007155 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 634452007156 GatB domain; Region: GatB_Yqey; smart00845 634452007157 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 634452007158 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634452007159 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452007160 Walker A/P-loop; other site 634452007161 ATP binding site [chemical binding]; other site 634452007162 Q-loop/lid; other site 634452007163 ABC transporter signature motif; other site 634452007164 Walker B; other site 634452007165 D-loop; other site 634452007166 H-loop/switch region; other site 634452007167 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 634452007168 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 634452007169 minor groove reading motif; other site 634452007170 helix-hairpin-helix signature motif; other site 634452007171 substrate binding pocket [chemical binding]; other site 634452007172 active site 634452007173 ferrochelatase; Reviewed; Region: hemH; PRK00035 634452007174 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 634452007175 C-terminal domain interface [polypeptide binding]; other site 634452007176 active site 634452007177 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 634452007178 active site 634452007179 N-terminal domain interface [polypeptide binding]; other site 634452007180 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 634452007181 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 634452007182 minor groove reading motif; other site 634452007183 helix-hairpin-helix signature motif; other site 634452007184 substrate binding pocket [chemical binding]; other site 634452007185 active site 634452007186 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 634452007187 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 634452007188 DNA binding and oxoG recognition site [nucleotide binding] 634452007189 Protein of unknown function (DUF721); Region: DUF721; cl02324 634452007190 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 634452007191 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 634452007192 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634452007193 catalytic residue [active] 634452007194 Sporulation related domain; Region: SPOR; cl10051 634452007195 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 634452007196 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 634452007197 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 634452007198 HIGH motif; other site 634452007199 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 634452007200 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634452007201 active site 634452007202 KMSKS motif; other site 634452007203 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 634452007204 tRNA binding surface [nucleotide binding]; other site 634452007205 Lipopolysaccharide-assembly; Region: LptE; pfam04390 634452007206 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 634452007207 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 634452007208 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 634452007209 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634452007210 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634452007211 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 634452007212 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 634452007213 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 634452007214 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 634452007215 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 634452007216 Ligand binding site [chemical binding]; other site 634452007217 Electron transfer flavoprotein domain; Region: ETF; pfam01012 634452007218 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 634452007219 hydroxyglutarate oxidase; Provisional; Region: PRK11728 634452007220 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 634452007221 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 634452007222 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 634452007223 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 634452007224 FeS/SAM binding site; other site 634452007225 HemN C-terminal domain; Region: HemN_C; pfam06969 634452007226 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 634452007227 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 634452007228 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 634452007229 ligand binding site [chemical binding]; other site 634452007230 flexible hinge region; other site 634452007231 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 634452007232 putative switch regulator; other site 634452007233 non-specific DNA interactions [nucleotide binding]; other site 634452007234 DNA binding site [nucleotide binding] 634452007235 sequence specific DNA binding site [nucleotide binding]; other site 634452007236 putative cAMP binding site [chemical binding]; other site 634452007237 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 634452007238 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 634452007239 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 634452007240 protein binding site [polypeptide binding]; other site 634452007241 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 634452007242 protein binding site [polypeptide binding]; other site 634452007243 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 634452007244 nucleoside/Zn binding site; other site 634452007245 dimer interface [polypeptide binding]; other site 634452007246 catalytic motif [active] 634452007247 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 634452007248 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 634452007249 catalytic triad [active] 634452007250 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 634452007251 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 634452007252 RNA binding surface [nucleotide binding]; other site 634452007253 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 634452007254 active site 634452007255 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 634452007256 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 634452007257 S-adenosylmethionine binding site [chemical binding]; other site 634452007258 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 634452007259 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 634452007260 dimer interface [polypeptide binding]; other site 634452007261 ssDNA binding site [nucleotide binding]; other site 634452007262 tetramer (dimer of dimers) interface [polypeptide binding]; other site 634452007263 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 634452007264 O-Antigen ligase; Region: Wzy_C; pfam04932 634452007265 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 634452007266 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 634452007267 active site 634452007268 catalytic residues [active] 634452007269 DNA binding site [nucleotide binding] 634452007270 Int/Topo IB signature motif; other site 634452007271 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634452007272 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 634452007273 catalytic residues [active] 634452007274 catalytic nucleophile [active] 634452007275 Presynaptic Site I dimer interface [polypeptide binding]; other site 634452007276 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634452007277 Synaptic Flat tetramer interface [polypeptide binding]; other site 634452007278 Synaptic Site I dimer interface [polypeptide binding]; other site 634452007279 DNA binding site [nucleotide binding] 634452007280 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 634452007281 DNA-binding interface [nucleotide binding]; DNA binding site 634452007282 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452007283 DEAD-like helicases superfamily; Region: DEXDc; smart00487 634452007284 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 634452007285 ATP binding site [chemical binding]; other site 634452007286 putative Mg++ binding site [ion binding]; other site 634452007287 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452007288 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452007289 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634452007290 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634452007291 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 634452007292 putative ADP-binding pocket [chemical binding]; other site 634452007293 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 634452007294 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 634452007295 active site 634452007296 HIGH motif; other site 634452007297 dimer interface [polypeptide binding]; other site 634452007298 KMSKS motif; other site 634452007299 protease TldD; Provisional; Region: tldD; PRK10735 634452007300 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 634452007301 catalytic core [active] 634452007302 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 634452007303 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 634452007304 NAD binding site [chemical binding]; other site 634452007305 substrate binding site [chemical binding]; other site 634452007306 homodimer interface [polypeptide binding]; other site 634452007307 active site 634452007308 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 634452007309 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 634452007310 substrate binding site; other site 634452007311 tetramer interface; other site 634452007312 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 634452007313 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 634452007314 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 634452007315 NADP binding site [chemical binding]; other site 634452007316 active site 634452007317 putative substrate binding site [chemical binding]; other site 634452007318 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 634452007319 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 634452007320 Probable Catalytic site; other site 634452007321 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 634452007322 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 634452007323 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 634452007324 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 634452007325 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 634452007326 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 634452007327 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634452007328 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 634452007329 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 634452007330 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 634452007331 putative C-terminal domain interface [polypeptide binding]; other site 634452007332 putative GSH binding site (G-site) [chemical binding]; other site 634452007333 putative dimer interface [polypeptide binding]; other site 634452007334 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 634452007335 putative N-terminal domain interface [polypeptide binding]; other site 634452007336 putative dimer interface [polypeptide binding]; other site 634452007337 putative substrate binding pocket (H-site) [chemical binding]; other site 634452007338 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 634452007339 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 634452007340 Ligand Binding Site [chemical binding]; other site 634452007341 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 634452007342 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 634452007343 catalytic loop [active] 634452007344 iron binding site [ion binding]; other site 634452007345 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 634452007346 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 634452007347 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634452007348 catalytic residue [active] 634452007349 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 634452007350 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634452007351 catalytic residue [active] 634452007352 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 634452007353 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 634452007354 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 634452007355 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 634452007356 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 634452007357 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 634452007358 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 634452007359 active site 634452007360 HIGH motif; other site 634452007361 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 634452007362 KMSKS motif; other site 634452007363 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 634452007364 tRNA binding surface [nucleotide binding]; other site 634452007365 anticodon binding site; other site 634452007366 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 634452007367 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634452007368 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 634452007369 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 634452007370 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 634452007371 catalytic residues [active] 634452007372 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 634452007373 Family description; Region: UvrD_C_2; pfam13538 634452007374 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 634452007375 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 634452007376 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 634452007377 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 634452007378 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634452007379 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 634452007380 active site 634452007381 phosphorylation site [posttranslational modification] 634452007382 intermolecular recognition site; other site 634452007383 dimerization interface [polypeptide binding]; other site 634452007384 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 634452007385 DNA binding site [nucleotide binding] 634452007386 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 634452007387 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 634452007388 active site 634452007389 substrate binding site [chemical binding]; other site 634452007390 metal binding site [ion binding]; metal-binding site 634452007391 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 634452007392 dihydropteroate synthase; Region: DHPS; TIGR01496 634452007393 substrate binding pocket [chemical binding]; other site 634452007394 dimer interface [polypeptide binding]; other site 634452007395 inhibitor binding site; inhibition site 634452007396 FtsH Extracellular; Region: FtsH_ext; pfam06480 634452007397 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 634452007398 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 634452007399 Walker A motif; other site 634452007400 ATP binding site [chemical binding]; other site 634452007401 Walker B motif; other site 634452007402 arginine finger; other site 634452007403 Peptidase family M41; Region: Peptidase_M41; pfam01434 634452007404 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 634452007405 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 634452007406 Ligand Binding Site [chemical binding]; other site 634452007407 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 634452007408 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 634452007409 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 634452007410 ligand binding site [chemical binding]; other site 634452007411 translocation protein TolB; Provisional; Region: tolB; PRK05137 634452007412 TolB amino-terminal domain; Region: TolB_N; pfam04052 634452007413 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 634452007414 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 634452007415 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634452007416 TolR protein; Region: tolR; TIGR02801 634452007417 TolQ protein; Region: tolQ; TIGR02796 634452007418 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 634452007419 active site 634452007420 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 634452007421 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 634452007422 Walker A motif; other site 634452007423 ATP binding site [chemical binding]; other site 634452007424 Walker B motif; other site 634452007425 arginine finger; other site 634452007426 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 634452007427 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 634452007428 RuvA N terminal domain; Region: RuvA_N; pfam01330 634452007429 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 634452007430 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 634452007431 active site 634452007432 putative DNA-binding cleft [nucleotide binding]; other site 634452007433 dimer interface [polypeptide binding]; other site 634452007434 hypothetical protein; Validated; Region: PRK00110 634452007435 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 634452007436 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 634452007437 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 634452007438 nucleotide binding region [chemical binding]; other site 634452007439 ATP-binding site [chemical binding]; other site 634452007440 SEC-C motif; Region: SEC-C; pfam02810 634452007441 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 634452007442 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 634452007443 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 634452007444 heterotetramer interface [polypeptide binding]; other site 634452007445 active site pocket [active] 634452007446 cleavage site 634452007447 RDD family; Region: RDD; pfam06271 634452007448 putative mechanosensitive channel protein; Provisional; Region: PRK11465 634452007449 Mechanosensitive ion channel; Region: MS_channel; pfam00924 634452007450 Biofilm formation and stress response factor; Region: BsmA; pfam10014 634452007451 chaperone protein DnaJ; Provisional; Region: PRK14299 634452007452 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 634452007453 HSP70 interaction site [polypeptide binding]; other site 634452007454 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 634452007455 substrate binding site [polypeptide binding]; other site 634452007456 dimer interface [polypeptide binding]; other site 634452007457 Membrane fusogenic activity; Region: BMFP; pfam04380 634452007458 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 634452007459 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 634452007460 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 634452007461 H+ Antiporter protein; Region: 2A0121; TIGR00900 634452007462 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 634452007463 IHF dimer interface [polypeptide binding]; other site 634452007464 IHF - DNA interface [nucleotide binding]; other site 634452007465 Rhamnan synthesis protein F; Region: RgpF; pfam05045 634452007466 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 634452007467 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634452007468 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634452007469 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 634452007470 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634452007471 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 634452007472 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 634452007473 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 634452007474 active site 634452007475 NAD synthetase; Reviewed; Region: nadE; PRK02628 634452007476 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 634452007477 multimer interface [polypeptide binding]; other site 634452007478 active site 634452007479 catalytic triad [active] 634452007480 protein interface 1 [polypeptide binding]; other site 634452007481 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 634452007482 homodimer interface [polypeptide binding]; other site 634452007483 NAD binding pocket [chemical binding]; other site 634452007484 ATP binding pocket [chemical binding]; other site 634452007485 Mg binding site [ion binding]; other site 634452007486 active-site loop [active] 634452007487 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 634452007488 putative active site pocket [active] 634452007489 4-fold oligomerization interface [polypeptide binding]; other site 634452007490 metal binding residues [ion binding]; metal-binding site 634452007491 3-fold/trimer interface [polypeptide binding]; other site 634452007492 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 634452007493 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 634452007494 putative active site [active] 634452007495 oxyanion strand; other site 634452007496 catalytic triad [active] 634452007497 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 634452007498 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634452007499 Coenzyme A binding pocket [chemical binding]; other site 634452007500 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 634452007501 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 634452007502 catalytic residues [active] 634452007503 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 634452007504 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 634452007505 substrate binding site [chemical binding]; other site 634452007506 glutamase interaction surface [polypeptide binding]; other site 634452007507 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 634452007508 metal binding site [ion binding]; metal-binding site 634452007509 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 634452007510 nucleotide binding site/active site [active] 634452007511 HIT family signature motif; other site 634452007512 catalytic residue [active] 634452007513 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 634452007514 putative FMN binding site [chemical binding]; other site 634452007515 hypothetical protein; Provisional; Region: PRK09126 634452007516 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 634452007517 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 634452007518 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 634452007519 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 634452007520 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 634452007521 putative C-terminal domain interface [polypeptide binding]; other site 634452007522 putative GSH binding site (G-site) [chemical binding]; other site 634452007523 putative dimer interface [polypeptide binding]; other site 634452007524 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 634452007525 putative N-terminal domain interface [polypeptide binding]; other site 634452007526 putative dimer interface [polypeptide binding]; other site 634452007527 putative substrate binding pocket (H-site) [chemical binding]; other site 634452007528 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 634452007529 ParB-like nuclease domain; Region: ParB; smart00470 634452007530 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 634452007531 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 634452007532 P-loop; other site 634452007533 Magnesium ion binding site [ion binding]; other site 634452007534 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 634452007535 Magnesium ion binding site [ion binding]; other site 634452007536 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 634452007537 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 634452007538 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 634452007539 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 634452007540 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 634452007541 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 634452007542 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 634452007543 trmE is a tRNA modification GTPase; Region: trmE; cd04164 634452007544 G1 box; other site 634452007545 GTP/Mg2+ binding site [chemical binding]; other site 634452007546 Switch I region; other site 634452007547 G2 box; other site 634452007548 Switch II region; other site 634452007549 G3 box; other site 634452007550 G4 box; other site 634452007551 G5 box; other site 634452007552 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 634452007553 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 634452007554 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 634452007555 DNA binding site [nucleotide binding] 634452007556 active site 634452007557 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452007558 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452007559 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 634452007560 major facilitator superfamily transporter; Provisional; Region: PRK05122 634452007561 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 634452007562 putative substrate translocation pore; other site 634452007563 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 634452007564 dimer interface [polypeptide binding]; other site 634452007565 ADP-ribose binding site [chemical binding]; other site 634452007566 active site 634452007567 nudix motif; other site 634452007568 metal binding site [ion binding]; metal-binding site 634452007569 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 634452007570 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 634452007571 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 634452007572 motif II; other site 634452007573 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 634452007574 substrate binding site [chemical binding]; other site 634452007575 active site 634452007576 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 634452007577 active site 634452007578 dimer interface [polypeptide binding]; other site 634452007579 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 634452007580 Phage Terminase; Region: Terminase_1; pfam03354 634452007581 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634452007582 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 634452007583 catalytic residues [active] 634452007584 catalytic nucleophile [active] 634452007585 Presynaptic Site I dimer interface [polypeptide binding]; other site 634452007586 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634452007587 Synaptic Flat tetramer interface [polypeptide binding]; other site 634452007588 Synaptic Site I dimer interface [polypeptide binding]; other site 634452007589 DNA binding site [nucleotide binding] 634452007590 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 634452007591 DNA-binding interface [nucleotide binding]; DNA binding site 634452007592 hypothetical protein; Provisional; Region: PRK14709 634452007593 D5 N terminal like; Region: D5_N; smart00885 634452007594 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 634452007595 polymerase nucleotide-binding site; other site 634452007596 DNA-binding residues [nucleotide binding]; DNA binding site 634452007597 nucleotide binding site [chemical binding]; other site 634452007598 primase nucleotide-binding site [nucleotide binding]; other site 634452007599 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 634452007600 Transposase; Region: HTH_Tnp_1; pfam01527 634452007601 Integrase core domain; Region: rve_3; pfam13683 634452007602 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 634452007603 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 634452007604 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634452007605 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 634452007606 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 634452007607 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634452007608 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 634452007609 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 634452007610 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 634452007611 catalytic residues [active] 634452007612 catalytic nucleophile [active] 634452007613 Presynaptic Site I dimer interface [polypeptide binding]; other site 634452007614 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634452007615 Synaptic Flat tetramer interface [polypeptide binding]; other site 634452007616 Synaptic Site I dimer interface [polypeptide binding]; other site 634452007617 DDE superfamily endonuclease; Region: DDE_4; cl17710 634452007618 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 634452007619 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 634452007620 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 634452007621 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 634452007622 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 634452007623 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 634452007624 motif II; other site 634452007625 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 634452007626 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634452007627 Walker A/P-loop; other site 634452007628 ATP binding site [chemical binding]; other site 634452007629 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 634452007630 AAA domain; Region: AAA_12; pfam13087 634452007631 C-terminal domain of Escherichia coli uncharacterized protein yjhR and similar proteins; Region: PLDc_yjhR_C_like; cd09118 634452007632 PLD-like domain; Region: PLDc_2; pfam13091 634452007633 putative active site [active] 634452007634 catalytic site [active] 634452007635 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452007636 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452007637 Domain Homologous to E6-AP Carboxyl Terminus with; Region: HECTc; smart00119 634452007638 Transposase; Region: HTH_Tnp_1; pfam01527 634452007639 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 634452007640 HTH-like domain; Region: HTH_21; pfam13276 634452007641 Integrase core domain; Region: rve; pfam00665 634452007642 Integrase core domain; Region: rve_3; pfam13683 634452007643 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 634452007644 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 634452007645 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452007646 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 634452007647 DNA binding site [nucleotide binding] 634452007648 Int/Topo IB signature motif; other site 634452007649 active site 634452007650 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 634452007651 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 634452007652 non-specific DNA binding site [nucleotide binding]; other site 634452007653 salt bridge; other site 634452007654 sequence-specific DNA binding site [nucleotide binding]; other site 634452007655 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 634452007656 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 634452007657 P-loop; other site 634452007658 Magnesium ion binding site [ion binding]; other site 634452007659 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 634452007660 Magnesium ion binding site [ion binding]; other site 634452007661 ParB-like nuclease domain; Region: ParBc; pfam02195 634452007662 KorB domain; Region: KorB; pfam08535 634452007663 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 634452007664 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 634452007665 S-adenosylmethionine binding site [chemical binding]; other site 634452007666 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 634452007667 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 634452007668 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452007669 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 634452007670 IHF dimer interface [polypeptide binding]; other site 634452007671 IHF - DNA interface [nucleotide binding]; other site 634452007672 TrwC relaxase; Region: TrwC; pfam08751 634452007673 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452007674 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452007675 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452007676 Transposase domain (DUF772); Region: DUF772; pfam05598 634452007677 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634452007678 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634452007679 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 634452007680 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 634452007681 dimer interface [polypeptide binding]; other site 634452007682 active site 634452007683 metal binding site [ion binding]; metal-binding site 634452007684 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634452007685 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 634452007686 NAD(P) binding site [chemical binding]; other site 634452007687 catalytic residues [active] 634452007688 Integrase core domain; Region: rve; pfam00665 634452007689 Winged helix-turn helix; Region: HTH_29; pfam13551 634452007690 Integrase core domain; Region: rve; pfam00665 634452007691 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634452007692 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 634452007693 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 634452007694 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 634452007695 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 634452007696 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 634452007697 Soluble P-type ATPase [General function prediction only]; Region: COG4087 634452007698 potassium-transporting ATPase subunit C; Provisional; Region: PRK13999 634452007699 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 634452007700 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 634452007701 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 634452007702 Ligand Binding Site [chemical binding]; other site 634452007703 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 634452007704 GAF domain; Region: GAF_3; pfam13492 634452007705 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 634452007706 dimer interface [polypeptide binding]; other site 634452007707 phosphorylation site [posttranslational modification] 634452007708 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 634452007709 ATP binding site [chemical binding]; other site 634452007710 Mg2+ binding site [ion binding]; other site 634452007711 G-X-G motif; other site 634452007712 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634452007713 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 634452007714 active site 634452007715 phosphorylation site [posttranslational modification] 634452007716 intermolecular recognition site; other site 634452007717 dimerization interface [polypeptide binding]; other site 634452007718 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 634452007719 DNA binding site [nucleotide binding] 634452007720 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 634452007721 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452007722 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 634452007723 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634452007724 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 634452007725 Acyltransferase family; Region: Acyl_transf_3; pfam01757 634452007726 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 634452007727 Fic/DOC family; Region: Fic; cl00960 634452007728 Replication protein C N-terminal domain; Region: RP-C; pfam03428 634452007729 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 634452007730 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452007731 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634452007732 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 634452007733 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 634452007734 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 634452007735 active site 634452007736 catalytic site [active] 634452007737 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 634452007738 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634452007739 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 634452007740 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634452007741 CrcB-like protein; Region: CRCB; cl09114 634452007742 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452007743 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 634452007744 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452007745 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452007746 Transposase domain (DUF772); Region: DUF772; pfam05598 634452007747 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 634452007748 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 634452007749 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 634452007750 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452007751 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634452007752 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452007753 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452007754 manganese transport protein MntH; Reviewed; Region: PRK00701 634452007755 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 634452007756 manganese transport regulator MntR; Provisional; Region: PRK11050 634452007757 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 634452007758 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 634452007759 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 634452007760 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 634452007761 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 634452007762 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 634452007763 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 634452007764 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 634452007765 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 634452007766 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 634452007767 iron-sulfur cluster [ion binding]; other site 634452007768 [2Fe-2S] cluster binding site [ion binding]; other site 634452007769 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452007770 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 634452007771 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452007772 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634452007773 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634452007774 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634452007775 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452007776 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452007777 putative transposase OrfB; Reviewed; Region: PHA02517 634452007778 HTH-like domain; Region: HTH_21; pfam13276 634452007779 Integrase core domain; Region: rve; pfam00665 634452007780 Integrase core domain; Region: rve_3; pfam13683 634452007781 Transposase; Region: HTH_Tnp_1; cl17663 634452007782 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 634452007783 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 634452007784 Transposase domain (DUF772); Region: DUF772; pfam05598 634452007785 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452007786 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 634452007787 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 634452007788 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 634452007789 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 634452007790 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 634452007791 CRISPR-associated protein Cse2 (CRISPR_cse2); Region: CRISPR_Cse2; pfam09485 634452007792 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 634452007793 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 634452007794 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cd09693 634452007795 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 634452007796 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 634452007797 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 634452007798 Winged helix-turn helix; Region: HTH_29; pfam13551 634452007799 Integrase core domain; Region: rve; pfam00665 634452007800 Integrase core domain; Region: rve_3; pfam13683 634452007801 Predicted transcriptional regulator [Transcription]; Region: COG4190 634452007802 Abi-like protein; Region: Abi_2; pfam07751 634452007803 putative transposase OrfB; Reviewed; Region: PHA02517 634452007804 HTH-like domain; Region: HTH_21; pfam13276 634452007805 Integrase core domain; Region: rve; pfam00665 634452007806 Integrase core domain; Region: rve_3; pfam13683 634452007807 Transposase; Region: HTH_Tnp_1; cl17663 634452007808 Predicted membrane protein [Function unknown]; Region: COG3431 634452007809 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452007810 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 634452007811 apolar tunnel; other site 634452007812 heme binding site [chemical binding]; other site 634452007813 dimerization interface [polypeptide binding]; other site 634452007814 Domain of unknown function (DUF1971); Region: DUF1971; pfam09313 634452007815 Transposase domain (DUF772); Region: DUF772; pfam05598 634452007816 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452007817 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 634452007818 HTH-like domain; Region: HTH_21; pfam13276 634452007819 Integrase core domain; Region: rve; pfam00665 634452007820 Integrase core domain; Region: rve_3; pfam13683 634452007821 Transposase; Region: HTH_Tnp_1; pfam01527 634452007822 bifunctional antitoxin/transcriptional repressor RelB; Provisional; Region: PRK11235 634452007823 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 634452007824 Abi-like protein; Region: Abi_2; cl01988 634452007825 myosin-cross-reactive antigen; Provisional; Region: PRK13977 634452007826 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452007827 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 634452007828 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452007829 Transposase domain (DUF772); Region: DUF772; pfam05598 634452007830 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 634452007831 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452007832 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 634452007833 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 634452007834 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 634452007835 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634452007836 Transposase domain (DUF772); Region: DUF772; pfam05598 634452007837 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452007838 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 634452007839 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 634452007840 IHF dimer interface [polypeptide binding]; other site 634452007841 IHF - DNA interface [nucleotide binding]; other site 634452007842 putative transposase OrfB; Reviewed; Region: PHA02517 634452007843 HTH-like domain; Region: HTH_21; pfam13276 634452007844 Integrase core domain; Region: rve; pfam00665 634452007845 Integrase core domain; Region: rve_3; pfam13683 634452007846 Transposase; Region: HTH_Tnp_1; cl17663 634452007847 PemK-like protein; Region: PemK; cl00995 634452007848 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 634452007849 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 634452007850 oligomeric interface; other site 634452007851 putative active site [active] 634452007852 homodimer interface [polypeptide binding]; other site 634452007853 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 634452007854 Integrase core domain; Region: rve_3; pfam13683 634452007855 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452007856 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 634452007857 DNA-binding interface [nucleotide binding]; DNA binding site 634452007858 hypothetical protein; Provisional; Region: PRK10621 634452007859 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 634452007860 DDE superfamily endonuclease; Region: DDE_5; pfam13546 634452007861 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452007862 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634452007863 active site 634452007864 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 634452007865 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 634452007866 acyl-activating enzyme (AAE) consensus motif; other site 634452007867 AMP binding site [chemical binding]; other site 634452007868 active site 634452007869 CoA binding site [chemical binding]; other site 634452007870 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 634452007871 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634452007872 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 634452007873 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 634452007874 AIR synthase-related protein, sll0787 family; Region: AIR_rel_sll0787; TIGR04049 634452007875 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 634452007876 dimerization interface [polypeptide binding]; other site 634452007877 putative ATP binding site [chemical binding]; other site 634452007878 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634452007879 Coenzyme A binding pocket [chemical binding]; other site 634452007880 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 634452007881 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 634452007882 FeS/SAM binding site; other site 634452007883 Predicted amidohydrolase [General function prediction only]; Region: COG0388 634452007884 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 634452007885 putative active site [active] 634452007886 catalytic triad [active] 634452007887 putative dimer interface [polypeptide binding]; other site 634452007888 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 634452007889 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 634452007890 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 634452007891 DNA-binding site [nucleotide binding]; DNA binding site 634452007892 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 634452007893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634452007894 homodimer interface [polypeptide binding]; other site 634452007895 catalytic residue [active] 634452007896 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 634452007897 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634452007898 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452007899 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 634452007900 dimerization interface [polypeptide binding]; other site 634452007901 substrate binding pocket [chemical binding]; other site 634452007902 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 634452007903 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 634452007904 putative substrate translocation pore; other site 634452007905 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 634452007906 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452007907 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452007908 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 634452007909 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 634452007910 AAA domain; Region: AAA_30; pfam13604 634452007911 Family description; Region: UvrD_C_2; pfam13538 634452007912 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 634452007913 active site 634452007914 catalytic residues [active] 634452007915 DNA binding site [nucleotide binding] 634452007916 Int/Topo IB signature motif; other site 634452007917 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452007918 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452007919 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452007920 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 634452007921 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 634452007922 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634452007923 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452007924 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452007925 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634452007926 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634452007927 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634452007928 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 634452007929 active site 634452007930 NTP binding site [chemical binding]; other site 634452007931 metal binding triad [ion binding]; metal-binding site 634452007932 antibiotic binding site [chemical binding]; other site 634452007933 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 634452007934 HsdM N-terminal domain; Region: HsdM_N; pfam12161 634452007935 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 634452007936 Methyltransferase domain; Region: Methyltransf_26; pfam13659 634452007937 S-adenosylmethionine binding site [chemical binding]; other site 634452007938 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 634452007939 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 634452007940 FMN binding site [chemical binding]; other site 634452007941 active site 634452007942 substrate binding site [chemical binding]; other site 634452007943 catalytic residue [active] 634452007944 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634452007945 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 634452007946 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452007947 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634452007948 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452007949 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 634452007950 putative substrate binding pocket [chemical binding]; other site 634452007951 dimerization interface [polypeptide binding]; other site 634452007952 acetylornithine deacetylase; Provisional; Region: PRK07522 634452007953 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 634452007954 metal binding site [ion binding]; metal-binding site 634452007955 putative dimer interface [polypeptide binding]; other site 634452007956 choline dehydrogenase; Validated; Region: PRK02106 634452007957 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 634452007958 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 634452007959 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 634452007960 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 634452007961 Na binding site [ion binding]; other site 634452007962 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 634452007963 homotrimer interaction site [polypeptide binding]; other site 634452007964 putative active site [active] 634452007965 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634452007966 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 634452007967 NAD(P) binding site [chemical binding]; other site 634452007968 catalytic residues [active] 634452007969 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 634452007970 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 634452007971 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 634452007972 Transposase; Region: HTH_Tnp_1; pfam01527 634452007973 HTH-like domain; Region: HTH_21; pfam13276 634452007974 Integrase core domain; Region: rve; pfam00665 634452007975 Integrase core domain; Region: rve_3; pfam13683 634452007976 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 634452007977 NMT1-like family; Region: NMT1_2; pfam13379 634452007978 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 634452007979 cheY-homologous receiver domain; Region: REC; smart00448 634452007980 ANTAR domain; Region: ANTAR; pfam03861 634452007981 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 634452007982 molybdopterin cofactor binding site; other site 634452007983 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 634452007984 molybdopterin cofactor binding site; other site 634452007985 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 634452007986 Flavodoxin; Region: Flavodoxin_1; pfam00258 634452007987 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 634452007988 FAD binding pocket [chemical binding]; other site 634452007989 conserved FAD binding motif [chemical binding]; other site 634452007990 phosphate binding motif [ion binding]; other site 634452007991 beta-alpha-beta structure motif; other site 634452007992 NAD binding pocket [chemical binding]; other site 634452007993 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452007994 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452007995 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634452007996 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 634452007997 potential frameshift: common BLAST hit: gi|182678936|ref|YP_001833082.1| nitrite reductase (NAD(P)H), large subunit 634452007998 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 634452007999 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 634452008000 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 634452008001 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 634452008002 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 634452008003 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 634452008004 potential frameshift: common BLAST hit: gi|182678937|ref|YP_001833083.1| major facilitator transporter 634452008005 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 634452008006 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 634452008007 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 634452008008 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 634452008009 sensor protein QseC; Provisional; Region: PRK10337 634452008010 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634452008011 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 634452008012 dimer interface [polypeptide binding]; other site 634452008013 phosphorylation site [posttranslational modification] 634452008014 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634452008015 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 634452008016 active site 634452008017 phosphorylation site [posttranslational modification] 634452008018 intermolecular recognition site; other site 634452008019 dimerization interface [polypeptide binding]; other site 634452008020 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 634452008021 DNA binding site [nucleotide binding] 634452008022 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 634452008023 HlyD family secretion protein; Region: HlyD_2; pfam12700 634452008024 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634452008025 HlyD family secretion protein; Region: HlyD_3; pfam13437 634452008026 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 634452008027 Outer membrane efflux protein; Region: OEP; pfam02321 634452008028 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 634452008029 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634452008030 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 634452008031 methionine synthase; Provisional; Region: PRK01207 634452008032 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 634452008033 substrate binding site [chemical binding]; other site 634452008034 THF binding site; other site 634452008035 zinc-binding site [ion binding]; other site 634452008036 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634452008037 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452008038 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 634452008039 putative dimerization interface [polypeptide binding]; other site 634452008040 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634452008041 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452008042 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452008043 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 634452008044 non-specific DNA binding site [nucleotide binding]; other site 634452008045 salt bridge; other site 634452008046 sequence-specific DNA binding site [nucleotide binding]; other site 634452008047 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 634452008048 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 634452008049 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 634452008050 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 634452008051 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 634452008052 arsenical pump membrane protein; Provisional; Region: PRK15445 634452008053 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 634452008054 transmembrane helices; other site 634452008055 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 634452008056 ArsC family; Region: ArsC; pfam03960 634452008057 catalytic residues [active] 634452008058 Protein of unknown function DUF45; Region: DUF45; pfam01863 634452008059 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 634452008060 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 634452008061 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 634452008062 ATP binding site [chemical binding]; other site 634452008063 putative Mg++ binding site [ion binding]; other site 634452008064 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634452008065 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634452008066 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634452008067 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 634452008068 HsdM N-terminal domain; Region: HsdM_N; pfam12161 634452008069 Methyltransferase domain; Region: Methyltransf_26; pfam13659 634452008070 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 634452008071 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634452008072 HTH-like domain; Region: HTH_21; pfam13276 634452008073 Integrase core domain; Region: rve; pfam00665 634452008074 Integrase core domain; Region: rve_3; pfam13683 634452008075 Transposase; Region: HTH_Tnp_1; pfam01527 634452008076 CCC1-related family of proteins; Region: CCC1_like; cl00278 634452008077 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 634452008078 ArsC family; Region: ArsC; pfam03960 634452008079 catalytic residues [active] 634452008080 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 634452008081 Transposase; Region: HTH_Tnp_1; cl17663 634452008082 putative transposase OrfB; Reviewed; Region: PHA02517 634452008083 HTH-like domain; Region: HTH_21; pfam13276 634452008084 Integrase core domain; Region: rve; pfam00665 634452008085 Integrase core domain; Region: rve_3; pfam13683 634452008086 Integrase core domain; Region: rve; pfam00665 634452008087 Integrase core domain; Region: rve_3; pfam13683 634452008088 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634452008089 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634452008090 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 634452008091 putative substrate binding pocket [chemical binding]; other site 634452008092 putative dimerization interface [polypeptide binding]; other site 634452008093 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 634452008094 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 634452008095 Transposase; Region: HTH_Tnp_1; cl17663 634452008096 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634452008097 HTH-like domain; Region: HTH_21; pfam13276 634452008098 Integrase core domain; Region: rve; pfam00665 634452008099 Integrase core domain; Region: rve_3; pfam13683 634452008100 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 634452008101 oligomeric interface; other site 634452008102 putative active site [active] 634452008103 homodimer interface [polypeptide binding]; other site 634452008104 Integrase core domain; Region: rve; pfam00665 634452008105 Winged helix-turn helix; Region: HTH_29; pfam13551 634452008106 Integrase core domain; Region: rve; pfam00665 634452008107 Transposase; Region: HTH_Tnp_1; pfam01527 634452008108 HTH-like domain; Region: HTH_21; pfam13276 634452008109 Integrase core domain; Region: rve; pfam00665 634452008110 Integrase core domain; Region: rve_3; pfam13683 634452008111 K+ potassium transporter; Region: K_trans; pfam02705 634452008112 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 634452008113 HTH-like domain; Region: HTH_21; pfam13276 634452008114 Integrase core domain; Region: rve; pfam00665 634452008115 Integrase core domain; Region: rve_3; pfam13683 634452008116 Transposase; Region: HTH_Tnp_1; pfam01527 634452008117 K+ potassium transporter; Region: K_trans; cl15781 634452008118 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 634452008119 Walker A motif; other site 634452008120 ATP binding site [chemical binding]; other site 634452008121 Walker B motif; other site 634452008122 arginine finger; other site 634452008123 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 634452008124 Integrase core domain; Region: rve; pfam00665 634452008125 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452008126 TrwC relaxase; Region: TrwC; pfam08751 634452008127 Integrase core domain; Region: rve; pfam00665 634452008128 Integrase core domain; Region: rve_3; pfam13683 634452008129 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452008130 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 634452008131 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 634452008132 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 634452008133 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634452008134 catalytic residue [active] 634452008135 Dot/Icm secretion system ATPase DotB; Region: dot_icm_DotB; TIGR02524 634452008136 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 634452008137 Walker A motif; other site 634452008138 ATP binding site [chemical binding]; other site 634452008139 Walker B motif; other site 634452008140 RelB antitoxin; Region: RelB; cl01171 634452008141 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 634452008142 AAA-like domain; Region: AAA_10; pfam12846 634452008143 Transposase; Region: HTH_Tnp_1; pfam01527 634452008144 HTH-like domain; Region: HTH_21; pfam13276 634452008145 Integrase core domain; Region: rve; pfam00665 634452008146 Integrase core domain; Region: rve_3; pfam13683 634452008147 Protein of unknown function (DUF2859); Region: DUF2859; cl12633 634452008148 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452008149 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634452008150 active site 634452008151 Transposase; Region: HTH_Tnp_1; cl17663 634452008152 potential frameshift: common BLAST hit: gi|58039133|ref|YP_191097.1| transposase 634452008153 HTH-like domain; Region: HTH_21; pfam13276 634452008154 Integrase core domain; Region: rve; pfam00665 634452008155 Integrase core domain; Region: rve_3; pfam13683 634452008156 Hint domain; Region: Hint_2; pfam13403 634452008157 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634452008158 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452008159 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 634452008160 putative active site [active] 634452008161 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 634452008162 HTH-like domain; Region: HTH_21; pfam13276 634452008163 Integrase core domain; Region: rve; pfam00665 634452008164 Integrase core domain; Region: rve_3; pfam13683 634452008165 Transposase; Region: HTH_Tnp_1; pfam01527 634452008166 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 634452008167 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 634452008168 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 634452008169 active site 634452008170 DNA binding site [nucleotide binding] 634452008171 Int/Topo IB signature motif; other site 634452008172 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 634452008173 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 634452008174 Outer membrane efflux protein; Region: OEP; pfam02321 634452008175 Outer membrane efflux protein; Region: OEP; pfam02321 634452008176 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 634452008177 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 634452008178 DNA binding residues [nucleotide binding] 634452008179 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 634452008180 dimer interface [polypeptide binding]; other site 634452008181 putative metal binding site [ion binding]; other site 634452008182 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 634452008183 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 634452008184 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 634452008185 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 634452008186 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 634452008187 Soluble P-type ATPase [General function prediction only]; Region: COG4087 634452008188 potassium-transporting ATPase subunit C; Provisional; Region: PRK13999 634452008189 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 634452008190 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 634452008191 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 634452008192 Ligand Binding Site [chemical binding]; other site 634452008193 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 634452008194 GAF domain; Region: GAF_3; pfam13492 634452008195 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 634452008196 dimer interface [polypeptide binding]; other site 634452008197 phosphorylation site [posttranslational modification] 634452008198 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 634452008199 ATP binding site [chemical binding]; other site 634452008200 Mg2+ binding site [ion binding]; other site 634452008201 G-X-G motif; other site 634452008202 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634452008203 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 634452008204 active site 634452008205 phosphorylation site [posttranslational modification] 634452008206 intermolecular recognition site; other site 634452008207 dimerization interface [polypeptide binding]; other site 634452008208 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 634452008209 DNA binding site [nucleotide binding] 634452008210 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634452008211 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634452008212 short chain dehydrogenase; Provisional; Region: PRK06180 634452008213 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 634452008214 NADP binding site [chemical binding]; other site 634452008215 active site 634452008216 steroid binding site; other site 634452008217 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 634452008218 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 634452008219 potential catalytic triad [active] 634452008220 conserved cys residue [active] 634452008221 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 634452008222 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 634452008223 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 634452008224 ATP binding site [chemical binding]; other site 634452008225 putative Mg++ binding site [ion binding]; other site 634452008226 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634452008227 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 634452008228 HsdM N-terminal domain; Region: HsdM_N; pfam12161 634452008229 Methyltransferase domain; Region: Methyltransf_26; pfam13659 634452008230 Helix-turn-helix domain; Region: HTH_17; pfam12728 634452008231 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 634452008232 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 634452008233 active site 634452008234 DNA binding site [nucleotide binding] 634452008235 Int/Topo IB signature motif; other site 634452008236 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 634452008237 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 634452008238 oligomeric interface; other site 634452008239 putative active site [active] 634452008240 homodimer interface [polypeptide binding]; other site 634452008241 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 634452008242 Integrase core domain; Region: rve; pfam00665 634452008243 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 634452008244 Walker A motif; other site 634452008245 ATP binding site [chemical binding]; other site 634452008246 Walker B motif; other site 634452008247 arginine finger; other site 634452008248 Post-segregation antitoxin CcdA; Region: CcdA; pfam07362 634452008249 CcdB protein; Region: CcdB; cl03380 634452008250 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 634452008251 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452008252 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634452008253 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634452008254 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 634452008255 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634452008256 Transposase; Region: HTH_Tnp_1; cl17663 634452008257 Helix-turn-helix domain; Region: HTH_28; pfam13518 634452008258 Winged helix-turn helix; Region: HTH_29; pfam13551 634452008259 Homeodomain-like domain; Region: HTH_32; pfam13565 634452008260 Integrase core domain; Region: rve; pfam00665 634452008261 Integrase core domain; Region: rve_3; pfam13683 634452008262 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 634452008263 ParB-like nuclease domain; Region: ParBc; pfam02195 634452008264 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 634452008265 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 634452008266 S-adenosylmethionine binding site [chemical binding]; other site 634452008267 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 634452008268 DEAD-like helicases superfamily; Region: DEXDc; smart00487 634452008269 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 634452008270 helicase superfamily c-terminal domain; Region: HELICc; smart00490 634452008271 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634452008272 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452008273 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634452008274 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 634452008275 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 634452008276 active site 634452008277 DNA binding site [nucleotide binding] 634452008278 Int/Topo IB signature motif; other site 634452008279 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 634452008280 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 634452008281 DDE superfamily endonuclease; Region: DDE_5; cl17874 634452008282 putative transposase OrfB; Reviewed; Region: PHA02517 634452008283 HTH-like domain; Region: HTH_21; pfam13276 634452008284 Integrase core domain; Region: rve; pfam00665 634452008285 Integrase core domain; Region: rve_3; pfam13683 634452008286 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634452008287 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 634452008288 catalytic residues [active] 634452008289 catalytic nucleophile [active] 634452008290 Presynaptic Site I dimer interface [polypeptide binding]; other site 634452008291 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634452008292 Synaptic Flat tetramer interface [polypeptide binding]; other site 634452008293 Synaptic Site I dimer interface [polypeptide binding]; other site 634452008294 DNA binding site [nucleotide binding] 634452008295 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 634452008296 DNA-binding interface [nucleotide binding]; DNA binding site 634452008297 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG1569 634452008298 Conjugal transfer protein TraD; Region: TraD; pfam06412 634452008299 putative transposase OrfB; Reviewed; Region: PHA02517 634452008300 HTH-like domain; Region: HTH_21; pfam13276 634452008301 Integrase core domain; Region: rve; pfam00665 634452008302 Integrase core domain; Region: rve_3; pfam13683 634452008303 Transposase; Region: HTH_Tnp_1; cl17663 634452008304 Hint domain; Region: Hint_2; pfam13403 634452008305 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634452008306 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634452008307 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 634452008308 HTH-like domain; Region: HTH_21; pfam13276 634452008309 Integrase core domain; Region: rve; pfam00665 634452008310 Integrase core domain; Region: rve_3; pfam13683 634452008311 Transposase; Region: HTH_Tnp_1; pfam01527 634452008312 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 634452008313 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 634452008314 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 634452008315 DNA-binding interface [nucleotide binding]; DNA binding site 634452008316 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634452008317 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 634452008318 catalytic residues [active] 634452008319 catalytic nucleophile [active] 634452008320 Presynaptic Site I dimer interface [polypeptide binding]; other site 634452008321 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634452008322 Synaptic Flat tetramer interface [polypeptide binding]; other site 634452008323 Synaptic Site I dimer interface [polypeptide binding]; other site 634452008324 DNA binding site [nucleotide binding] 634452008325 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 634452008326 DNA-binding interface [nucleotide binding]; DNA binding site 634452008327 Winged helix-turn helix; Region: HTH_29; pfam13551 634452008328 Helix-turn-helix domain; Region: HTH_28; pfam13518 634452008329 Homeodomain-like domain; Region: HTH_32; pfam13565 634452008330 Integrase core domain; Region: rve; pfam00665 634452008331 Integrase core domain; Region: rve_3; cl15866 634452008332 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 634452008333 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 634452008334 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 634452008335 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634452008336 catalytic residues [active] 634452008337 catalytic nucleophile [active] 634452008338 Presynaptic Site I dimer interface [polypeptide binding]; other site 634452008339 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634452008340 Synaptic Flat tetramer interface [polypeptide binding]; other site 634452008341 Synaptic Site I dimer interface [polypeptide binding]; other site 634452008342 DNA binding site [nucleotide binding] 634452008343 ParA-like protein; Provisional; Region: PHA02518 634452008344 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 634452008345 P-loop; other site 634452008346 Magnesium ion binding site [ion binding]; other site 634452008347 Replication initiator protein A; Region: RPA; pfam10134 634452008348 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 634452008349 putative addiction module antidote; Region: doc_partner; TIGR02609 634452008350 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 634452008351 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 634452008352 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 634452008353 putative active site [active] 634452008354 Protein of unknown function (DUF3680); Region: DUF3680; pfam12441 634452008355 Conjugal transfer protein TraD; Region: TraD; pfam06412 634452008356 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 634452008357 MobA/MobL family; Region: MobA_MobL; pfam03389 634452008358 AAA domain; Region: AAA_30; pfam13604 634452008359 Family description; Region: UvrD_C_2; pfam13538 634452008360 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 634452008361 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 634452008362 oligomeric interface; other site 634452008363 putative active site [active] 634452008364 homodimer interface [polypeptide binding]; other site 634452008365 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 634452008366 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452008367 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 634452008368 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 634452008369 catalytic residues [active] 634452008370 catalytic nucleophile [active] 634452008371 AAA domain; Region: AAA_31; pfam13614 634452008372 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 634452008373 P-loop; other site 634452008374 Magnesium ion binding site [ion binding]; other site 634452008375 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 634452008376 non-specific DNA binding site [nucleotide binding]; other site 634452008377 salt bridge; other site 634452008378 sequence-specific DNA binding site [nucleotide binding]; other site 634452008379 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 634452008380 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 634452008381 HTH-like domain; Region: HTH_21; pfam13276 634452008382 Integrase core domain; Region: rve; pfam00665 634452008383 Integrase core domain; Region: rve_3; pfam13683 634452008384 Transposase; Region: HTH_Tnp_1; pfam01527 634452008385 T5orf172 domain; Region: T5orf172; pfam10544 634452008386 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 634452008387 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 634452008388 Pseudomurein-binding repeat; Region: PMBR; pfam09373 634452008389 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 634452008390 Methyltransferase domain; Region: Methyltransf_26; pfam13659 634452008391 Fic family protein [Function unknown]; Region: COG3177 634452008392 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 634452008393 Fic/DOC family; Region: Fic; pfam02661 634452008394 PemK-like protein; Region: PemK; pfam02452 634452008395 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 634452008396 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 634452008397 Presynaptic Site I dimer interface [polypeptide binding]; other site 634452008398 catalytic residues [active] 634452008399 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634452008400 Synaptic Flat tetramer interface [polypeptide binding]; other site 634452008401 Synaptic Site I dimer interface [polypeptide binding]; other site 634452008402 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 634452008403 DNA-binding interface [nucleotide binding]; DNA binding site 634452008404 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 634452008405 Hint domain; Region: Hint_2; pfam13403 634452008406 Transposase; Region: HTH_Tnp_1; pfam01527 634452008407 HTH-like domain; Region: HTH_21; pfam13276 634452008408 Integrase core domain; Region: rve; pfam00665 634452008409 Integrase core domain; Region: rve_3; pfam13683 634452008410 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 634452008411 non-specific DNA binding site [nucleotide binding]; other site 634452008412 salt bridge; other site 634452008413 sequence-specific DNA binding site [nucleotide binding]; other site 634452008414 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 634452008415 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 634452008416 P-loop; other site 634452008417 Magnesium ion binding site [ion binding]; other site 634452008418 Conjugal transfer protein TraD; Region: TraD; pfam06412 634452008419 MobA/MobL family; Region: MobA_MobL; pfam03389 634452008420 Helix-turn-helix domain; Region: HTH_36; pfam13730 634452008421 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