-- dump date 20111121_015658 -- class Genbank::misc_feature -- table misc_feature_note -- id note 716544000001 Transposase, Mutator family; Region: Transposase_mut; pfam00872 716544000002 MULE transposase domain; Region: MULE; pfam10551 716544000003 Fic/DOC family; Region: Fic; cl00960 716544000004 Transposase [DNA replication, recombination, and repair]; Region: COG5433 716544000005 Transposase [DNA replication, recombination, and repair]; Region: COG5433 716544000006 Transposase, Mutator family; Region: Transposase_mut; pfam00872 716544000007 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 716544000008 substrate binding pocket [chemical binding]; other site 716544000009 chain length determination region; other site 716544000010 substrate-Mg2+ binding site; other site 716544000011 catalytic residues [active] 716544000012 aspartate-rich region 1; other site 716544000013 active site lid residues [active] 716544000014 aspartate-rich region 2; other site 716544000015 Putative glucose-1-phosphate thymidylyltransferase, C-terminal Left-handed parallel beta-Helix (LbH) domain: Proteins in this family show simlarity to glucose-1-phosphate adenylyltransferases in that they contain N-terminal catalytic domains that...; Region: LbH_G1P_TT_C_like; cd05636 716544000016 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 716544000017 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 716544000018 Ligand binding site; other site 716544000019 DXD motif; other site 716544000020 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 716544000021 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 716544000022 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 716544000023 S-adenosylmethionine binding site [chemical binding]; other site 716544000024 D-alanyl-alanine synthetase A; Provisional; Region: PRK14571 716544000025 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 716544000026 Protein of unknown function (DUF952); Region: DUF952; cl01393 716544000027 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 716544000028 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 716544000029 adenylosuccinate lyase; Region: purB; TIGR00928 716544000030 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 716544000031 tetramer interface [polypeptide binding]; other site 716544000032 active site 716544000033 Uncharacterised protein family (UPF0137); Region: UPF0137; pfam03677 716544000034 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 716544000035 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544000036 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 716544000037 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl03735 716544000038 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 716544000039 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 716544000040 active site 716544000041 dimer interface [polypeptide binding]; other site 716544000042 motif 1; other site 716544000043 motif 2; other site 716544000044 motif 3; other site 716544000045 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 716544000046 anticodon binding site; other site 716544000047 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 716544000048 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 716544000049 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 716544000050 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 716544000051 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 716544000052 Substrate binding site; other site 716544000053 Cupin domain; Region: Cupin_2; cl09118 716544000054 Major Facilitator Superfamily; Region: MFS_1; pfam07690 716544000055 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 716544000056 putative substrate translocation pore; other site 716544000057 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 716544000058 putative acyl-acceptor binding pocket; other site 716544000059 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 716544000060 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; cl15476 716544000061 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 716544000062 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544000063 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544000064 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 716544000065 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544000066 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544000067 glutathione synthetase; Provisional; Region: PRK12458 716544000068 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 716544000069 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 716544000070 dimer interface [polypeptide binding]; other site 716544000071 allosteric magnesium binding site [ion binding]; other site 716544000072 active site 716544000073 aspartate-rich active site metal binding site; other site 716544000074 Schiff base residues; other site 716544000075 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 716544000076 catalytic triad [active] 716544000077 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 716544000078 putative metal binding site; other site 716544000079 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 716544000080 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 716544000081 minor groove reading motif; other site 716544000082 helix-hairpin-helix signature motif; other site 716544000083 substrate binding pocket [chemical binding]; other site 716544000084 active site 716544000085 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 716544000086 DNA binding and oxoG recognition site [nucleotide binding] 716544000087 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 716544000088 potential frameshift: common BLAST hit: gi|85858895|ref|YP_461097.1| transposase 716544000089 Transposase, Mutator family; Region: Transposase_mut; pfam00872 716544000090 Transposase, Mutator family; Region: Transposase_mut; pfam00872 716544000091 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 716544000092 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 716544000093 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 716544000094 putative substrate translocation pore; other site 716544000095 Predicted esterase [General function prediction only]; Region: COG0400 716544000096 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 716544000097 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 716544000098 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 716544000099 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544000100 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 716544000101 L-serine binding site [chemical binding]; other site 716544000102 ACT domain interface; other site 716544000103 Chain length determinant protein; Region: Wzz; cl01623 716544000104 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 716544000105 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 716544000106 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 716544000107 polysaccharide export protein Wza; Provisional; Region: PRK15078 716544000108 SLBB domain; Region: SLBB; pfam10531 716544000109 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 716544000110 active site 716544000111 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 716544000112 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544000113 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 716544000114 NAD(P) binding site [chemical binding]; other site 716544000115 active site 716544000116 Cupin domain; Region: Cupin_2; cl09118 716544000117 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544000118 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 716544000119 NAD(P) binding site [chemical binding]; other site 716544000120 active site 716544000121 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 716544000122 substrate binding site; other site 716544000123 Amino acid permease; Region: AA_permease; cl00524 716544000124 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; cl12011 716544000125 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 716544000126 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 716544000127 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 716544000128 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 716544000129 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 716544000130 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 716544000131 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 716544000132 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 716544000133 rod shape-determining protein MreC; Region: MreC; pfam04085 716544000134 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 716544000135 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 716544000136 pyridoxal 5'-phosphate binding site [chemical binding]; other site 716544000137 homodimer interface [polypeptide binding]; other site 716544000138 catalytic residue [active] 716544000139 YacP-like NYN domain; Region: NYN_YacP; cl01491 716544000140 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 716544000141 active site 716544000142 dimerization interface [polypeptide binding]; other site 716544000143 transcript cleavage factor/unknown domain fusion protein; Validated; Region: PRK06330 716544000144 domain; Region: GreA_GreB_N; pfam03449 716544000145 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 716544000146 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 716544000147 SET domain; Region: SET; cl02566 716544000148 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 716544000149 putative ABC transporter; Region: ycf24; CHL00085 716544000150 FeS assembly ATPase SufC; Region: sufC; TIGR01978 716544000151 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 716544000152 Walker A/P-loop; other site 716544000153 ATP binding site [chemical binding]; other site 716544000154 Q-loop/lid; other site 716544000155 ABC transporter signature motif; other site 716544000156 Walker B; other site 716544000157 D-loop; other site 716544000158 H-loop/switch region; other site 716544000159 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 716544000160 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 716544000161 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 716544000162 Aminotransferase class-V; Region: Aminotran_5; pfam00266 716544000163 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 716544000164 catalytic residue [active] 716544000165 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 716544000166 SUA5 domain; Region: SUA5; pfam03481 716544000167 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544000168 P-loop motif; other site 716544000169 ATP binding site [chemical binding]; other site 716544000170 Chloramphenicol (Cm) binding site [chemical binding]; other site 716544000171 catalytic residue [active] 716544000172 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 716544000173 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 716544000174 FliP family; Region: FliP; cl00593 716544000175 type III secretion system protein; Validated; Region: PRK06328 716544000176 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 716544000177 lipoyl synthase; Provisional; Region: PRK05481 716544000178 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 716544000179 FeS/SAM binding site; other site 716544000180 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 716544000181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544000182 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 716544000183 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12899 716544000184 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544000185 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 716544000186 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 716544000187 nucleotide binding region [chemical binding]; other site 716544000188 ATP-binding site [chemical binding]; other site 716544000189 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 716544000190 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 716544000191 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 716544000192 active site 716544000193 OTU-like cysteine protease; Region: OTU; cl14910 716544000194 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 716544000195 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 716544000196 putative active site [active] 716544000197 metal binding site [ion binding]; metal-binding site 716544000198 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 716544000199 active site 716544000200 Uncharacterized protein predicted to be involved in C-type cytochrome biogenesis [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4233 716544000201 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 716544000202 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 716544000203 DsbD alpha interface [polypeptide binding]; other site 716544000204 catalytic residues [active] 716544000205 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 716544000206 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 716544000207 translocation protein TolB; Provisional; Region: tolB; PRK01029 716544000208 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 716544000209 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 716544000210 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 716544000211 active site 716544000212 catalytic residues [active] 716544000213 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 716544000214 ligand binding site [chemical binding]; other site 716544000215 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 716544000216 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 716544000217 putative peptidoglycan binding site; other site 716544000218 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 716544000219 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; cl09108 716544000220 catalytic residue [active] 716544000221 S-adenosylmethionine synthetase; Validated; Region: PRK05250 716544000222 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 716544000223 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 716544000224 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 716544000225 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 716544000226 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 716544000227 active site 716544000228 phosphorylation site [posttranslational modification] 716544000229 intermolecular recognition site; other site 716544000230 dimerization interface [polypeptide binding]; other site 716544000231 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 716544000232 DNA binding site [nucleotide binding] 716544000233 Protein of unknown function (DUF1347); Region: DUF1347; pfam07079 716544000234 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 716544000235 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 716544000236 binding surface 716544000237 TPR motif; other site 716544000238 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 716544000239 binding surface 716544000240 TPR motif; other site 716544000241 EamA-like transporter family; Region: EamA; cl01037 716544000242 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 716544000243 EamA-like transporter family; Region: EamA; cl01037 716544000244 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 716544000245 TPR motif; other site 716544000246 binding surface 716544000247 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 716544000248 S-adenosylmethionine binding site [chemical binding]; other site 716544000249 Sodium:solute symporter family; Region: SSF; cl00456 716544000250 Protein of unknown function (DUF917); Region: DUF917; pfam06032 716544000251 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 716544000252 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 716544000253 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 716544000254 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 716544000255 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 716544000256 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 716544000257 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 716544000258 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 716544000259 motif II; other site 716544000260 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; cl12011 716544000261 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 716544000262 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 716544000263 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 716544000264 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 716544000265 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 716544000266 putative substrate translocation pore; other site 716544000267 16S rRNA methyltransferase B; Provisional; Region: PRK14902 716544000268 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 716544000269 putative RNA binding site [nucleotide binding]; other site 716544000270 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; cl12011 716544000271 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 716544000272 classical (c) SDRs; Region: SDR_c; cd05233 716544000273 NAD(P) binding site [chemical binding]; other site 716544000274 active site 716544000275 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 716544000276 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 716544000277 Protein of unknown function DUF72; Region: DUF72; cl00777 716544000278 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 716544000279 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 716544000280 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 716544000281 S-adenosylmethionine binding site [chemical binding]; other site 716544000282 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_cladeC; cd03378 716544000283 active site clefts [active] 716544000284 zinc binding site [ion binding]; other site 716544000285 dimer interface [polypeptide binding]; other site 716544000286 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 716544000287 Permease family; Region: Xan_ur_permease; cl00967 716544000288 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 716544000289 dimerization interface [polypeptide binding]; other site 716544000290 putative DNA binding site [nucleotide binding]; other site 716544000291 putative Zn2+ binding site [ion binding]; other site 716544000292 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 716544000293 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 716544000294 recombination factor protein RarA; Reviewed; Region: PRK13342 716544000295 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 716544000296 Walker A motif; other site 716544000297 ATP binding site [chemical binding]; other site 716544000298 Walker B motif; other site 716544000299 arginine finger; other site 716544000300 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 716544000301 Fatty acid desaturase; Region: FA_desaturase; pfam00487 716544000302 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 716544000303 putative di-iron ligands [ion binding]; other site 716544000304 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 716544000305 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 716544000306 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 716544000307 FeS/SAM binding site; other site 716544000308 GtrA-like protein; Region: GtrA; cl00971 716544000309 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; cl12011 716544000310 Sodium:solute symporter family; Region: SSF; cl00456 716544000311 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 716544000312 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 716544000313 putative trimer interface [polypeptide binding]; other site 716544000314 putative active site [active] 716544000315 putative substrate binding site [chemical binding]; other site 716544000316 putative CoA binding site [chemical binding]; other site 716544000317 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 716544000318 TPR motif; other site 716544000319 binding surface 716544000320 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 716544000321 ADP-ribose binding site [chemical binding]; other site 716544000322 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 716544000323 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 716544000324 G1 box; other site 716544000325 putative GEF interaction site [polypeptide binding]; other site 716544000326 GTP/Mg2+ binding site [chemical binding]; other site 716544000327 Switch I region; other site 716544000328 G2 box; other site 716544000329 G3 box; other site 716544000330 Switch II region; other site 716544000331 G4 box; other site 716544000332 G5 box; other site 716544000333 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 716544000334 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 716544000335 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 716544000336 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 716544000337 Beta-Casp domain; Region: Beta-Casp; cl12567 716544000338 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 716544000339 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 716544000340 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 716544000341 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 includes...; Region: RuvC_resolvase; cl00243 716544000342 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 716544000343 RNA binding site [nucleotide binding]; other site 716544000344 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 716544000345 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 716544000346 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 716544000347 RHS Repeat; Region: RHS_repeat; cl11982 716544000348 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 716544000349 RHS Repeat; Region: RHS_repeat; cl11982 716544000350 RHS Repeat; Region: RHS_repeat; cl11982 716544000351 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 716544000352 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 716544000353 RHS Repeat; Region: RHS_repeat; cl11982 716544000354 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 716544000355 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 716544000356 putative transposase OrfB; Reviewed; Region: PHA02517 716544000357 Integrase core domain; Region: rve; cl01316 716544000358 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 716544000359 PEGA domain; Region: PEGA; pfam08308 716544000360 Thymidylate synthase complementing protein; Region: Thy1; cl03630 716544000361 Thymidylate synthase complementing protein; Region: Thy1; cl03630 716544000362 Amino acid permease; Region: AA_permease; cl00524 716544000363 Amino acid permease; Region: AA_permease; cl00524 716544000364 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 716544000365 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 716544000366 active site 716544000367 HIGH motif; other site 716544000368 dimer interface [polypeptide binding]; other site 716544000369 KMSKS motif; other site 716544000370 excinuclease ABC subunit B; Provisional; Region: PRK05298 716544000371 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 716544000372 ATP binding site [chemical binding]; other site 716544000373 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 716544000374 nucleotide binding region [chemical binding]; other site 716544000375 ATP-binding site [chemical binding]; other site 716544000376 Ultra-violet resistance protein B; Region: UvrB; pfam12344 716544000377 UvrB/uvrC motif; Region: UVR; pfam02151 716544000378 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 716544000379 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 716544000380 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 716544000381 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 716544000382 activation loop (A-loop); other site 716544000383 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 716544000384 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 716544000385 CoenzymeA binding site [chemical binding]; other site 716544000386 subunit interaction site [polypeptide binding]; other site 716544000387 PHB binding site; other site 716544000388 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14466 716544000389 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 716544000390 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 716544000391 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 716544000392 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 716544000393 Histone H1-like protein Hc1; Region: Hc1; pfam07432 716544000394 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 716544000395 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 716544000396 S-adenosylmethionine binding site [chemical binding]; other site 716544000397 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 716544000398 Preprotein translocase subunit; Region: YajC; cl00806 716544000399 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 716544000400 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 716544000401 S-adenosylmethionine binding site [chemical binding]; other site 716544000402 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 716544000403 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 716544000404 active site 716544000405 metal binding site [ion binding]; metal-binding site 716544000406 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 716544000407 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 716544000408 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544000409 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 716544000410 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; cl15357 716544000411 transmembrane helices; other site 716544000412 TLC ATP/ADP transporter; Region: TLC; cl03940 716544000413 heat shock protein 90; Provisional; Region: PRK05218 716544000414 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 716544000415 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 716544000416 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 716544000417 catalytic loop [active] 716544000418 iron binding site [ion binding]; other site 716544000419 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 716544000420 FAD binding pocket [chemical binding]; other site 716544000421 FAD binding motif [chemical binding]; other site 716544000422 phosphate binding motif [ion binding]; other site 716544000423 beta-alpha-beta structure motif; other site 716544000424 NAD binding pocket [chemical binding]; other site 716544000425 NAD synthetase; Provisional; Region: PRK13981 716544000426 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 716544000427 multimer interface [polypeptide binding]; other site 716544000428 active site 716544000429 catalytic triad [active] 716544000430 protein interface 1 [polypeptide binding]; other site 716544000431 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 716544000432 homodimer interface [polypeptide binding]; other site 716544000433 NAD binding pocket [chemical binding]; other site 716544000434 ATP binding pocket [chemical binding]; other site 716544000435 Mg binding site [ion binding]; other site 716544000436 active-site loop [active] 716544000437 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 716544000438 Transposase [DNA replication, recombination, and repair]; Region: COG5433 716544000439 Transposase [DNA replication, recombination, and repair]; Region: COG5433 716544000440 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 716544000441 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 716544000442 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; cl15358 716544000443 Integrase core domain; Region: rve; cl01316 716544000444 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; cl02542 716544000445 HSP70 interaction site [polypeptide binding]; other site 716544000446 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 716544000447 dimer interface [polypeptide binding]; other site 716544000448 catalytic triad [active] 716544000449 peroxidatic and resolving cysteines [active] 716544000450 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 attaches...; Region: class_II_aaRS-like_core; cl00268 716544000451 lysyl-tRNA synthetase-like protein GenX; Region: genX; TIGR00462 716544000452 motif 1; other site 716544000453 dimer interface [polypeptide binding]; other site 716544000454 active site 716544000455 motif 2; other site 716544000456 motif 3; other site 716544000457 elongation factor P; Validated; Region: PRK00529 716544000458 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 716544000459 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 716544000460 RNA binding site [nucleotide binding]; other site 716544000461 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 716544000462 RNA binding site [nucleotide binding]; other site 716544000463 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 716544000464 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 716544000465 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 716544000466 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 716544000467 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 716544000468 ATP binding site [chemical binding]; other site 716544000469 putative Mg++ binding site [ion binding]; other site 716544000470 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 716544000471 nucleotide binding region [chemical binding]; other site 716544000472 ATP-binding site [chemical binding]; other site 716544000473 TRCF domain; Region: TRCF; cl04088 716544000474 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 716544000475 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 formation of...; Region: AlaRS_core; cd00673 716544000476 motif 1; other site 716544000477 active site 716544000478 motif 2; other site 716544000479 motif 3; other site 716544000480 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 716544000481 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 716544000482 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 716544000483 PhnA protein; Region: PhnA; pfam03831 716544000484 putative transporter; Provisional; Region: PRK11660 716544000485 Permease family; Region: Xan_ur_permease; cl00967 716544000486 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 716544000487 transketolase; Reviewed; Region: PRK05899 716544000488 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 716544000489 TPP-binding site [chemical binding]; other site 716544000490 dimer interface [polypeptide binding]; other site 716544000491 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 716544000492 PYR/PP interface [polypeptide binding]; other site 716544000493 dimer interface [polypeptide binding]; other site 716544000494 TPP binding site [chemical binding]; other site 716544000495 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 716544000496 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 716544000497 substrate binding site [chemical binding]; other site 716544000498 active site 716544000499 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544000500 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 716544000501 Clp protease ATP binding subunit; Region: clpC; CHL00095 716544000502 Clp amino terminal domain; Region: Clp_N; pfam02861 716544000503 Clp amino terminal domain; Region: Clp_N; pfam02861 716544000504 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 716544000505 Walker A motif; other site 716544000506 ATP binding site [chemical binding]; other site 716544000507 Walker B motif; other site 716544000508 arginine finger; other site 716544000509 UvrB/uvrC motif; Region: UVR; pfam02151 716544000510 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 716544000511 Walker A motif; other site 716544000512 ATP binding site [chemical binding]; other site 716544000513 Walker B motif; other site 716544000514 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 716544000515 Protein of unknown function (DUF3638); Region: DUF3638; pfam12340 716544000516 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 716544000517 DNA binding residues [nucleotide binding] 716544000518 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 716544000519 active site 716544000520 phosphorylation site [posttranslational modification] 716544000521 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 716544000522 active site 716544000523 phosphorylation site [posttranslational modification] 716544000524 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 716544000525 trimer interface [polypeptide binding]; other site 716544000526 active site 716544000527 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 716544000528 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 716544000529 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 716544000530 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 716544000531 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 716544000532 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; cl03189 716544000533 domain interfaces; other site 716544000534 active site 716544000535 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 716544000536 active site 716544000537 DNA repair protein RadA; Provisional; Region: PRK11823 716544000538 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 716544000539 Walker A motif/ATP binding site; other site 716544000540 ATP binding site [chemical binding]; other site 716544000541 Walker B motif; other site 716544000542 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 716544000543 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 716544000544 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 716544000545 dimerization interface [polypeptide binding]; other site 716544000546 active site 716544000547 metal binding site [ion binding]; metal-binding site 716544000548 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 716544000549 dsRNA binding site [nucleotide binding]; other site 716544000550 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 716544000551 Chlamydial GcvH-like protein upstream region protein; Region: near_not_gcvH; TIGR03076 716544000552 Domon-like ligand-binding domains; Region: DOMON_like; cd00241 716544000553 putative ligand binding site [chemical binding]; other site 716544000554 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 716544000555 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 716544000556 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 716544000557 lipoyl attachment site [posttranslational modification]; other site 716544000558 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 716544000559 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 716544000560 tetramer interface [polypeptide binding]; other site 716544000561 pyridoxal 5'-phosphate binding site [chemical binding]; other site 716544000562 catalytic residue [active] 716544000563 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 716544000564 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 716544000565 tetramer interface [polypeptide binding]; other site 716544000566 pyridoxal 5'-phosphate binding site [chemical binding]; other site 716544000567 catalytic residue [active] 716544000568 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 716544000569 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 716544000570 FMN-binding domain; Region: FMN_bind; cl01081 716544000571 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 716544000572 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 716544000573 Uncharacterized conserved protein [Function unknown]; Region: HdeD; cl01277 716544000574 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 716544000575 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 716544000576 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 716544000577 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 716544000578 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 716544000579 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 716544000580 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 716544000581 Walker A motif; other site 716544000582 ATP binding site [chemical binding]; other site 716544000583 Walker B motif; other site 716544000584 arginine finger; other site 716544000585 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 716544000586 DnaA box-binding interface [nucleotide binding]; other site 716544000587 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 716544000588 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 716544000589 substrate binding pocket [chemical binding]; other site 716544000590 membrane-bound complex binding site; other site 716544000591 hinge residues; other site 716544000592 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 716544000593 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 716544000594 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 716544000595 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 716544000596 catalytic triad [active] 716544000597 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 716544000598 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 716544000599 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 716544000600 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 716544000601 dimer interface [polypeptide binding]; other site 716544000602 conserved gate region; other site 716544000603 ABC-ATPase subunit interface; other site 716544000604 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 716544000605 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; cl15358 716544000606 Integrase core domain; Region: rve; cl01316 716544000607 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 716544000608 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 716544000609 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 716544000610 dimer interface [polypeptide binding]; other site 716544000611 conserved gate region; other site 716544000612 ABC-ATPase subunit interface; other site 716544000613 putative carboxyl-terminal-processing protease, deltaproteobacterial; Region: prc_long_Delta; TIGR03900 716544000614 Phosphate transporter family; Region: PHO4; cl00396 716544000615 Phosphate transporter family; Region: PHO4; cl00396 716544000616 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 716544000617 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 716544000618 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 716544000619 Walker A/P-loop; other site 716544000620 ATP binding site [chemical binding]; other site 716544000621 Q-loop/lid; other site 716544000622 ABC transporter signature motif; other site 716544000623 Walker B; other site 716544000624 D-loop; other site 716544000625 H-loop/switch region; other site 716544000626 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 716544000627 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 716544000628 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 716544000629 Walker A/P-loop; other site 716544000630 ATP binding site [chemical binding]; other site 716544000631 Q-loop/lid; other site 716544000632 ABC transporter signature motif; other site 716544000633 Walker B; other site 716544000634 D-loop; other site 716544000635 H-loop/switch region; other site 716544000636 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 716544000637 Major Facilitator Superfamily; Region: MFS_1; pfam07690 716544000638 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 716544000639 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 716544000640 RNA binding surface [nucleotide binding]; other site 716544000641 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 716544000642 active site 716544000643 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 716544000644 catalytic core [active] 716544000645 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 716544000646 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 716544000647 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 716544000648 catalytic residue [active] 716544000649 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 716544000650 trimerization site [polypeptide binding]; other site 716544000651 active site 716544000652 NifU-like domain; Region: NifU; cl00484 716544000653 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 716544000654 catalytic residues [active] 716544000655 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 716544000656 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 716544000657 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 716544000658 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 716544000659 elongation factor G; Reviewed; Region: PRK12739 716544000660 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G; cd01886 716544000661 G1 box; other site 716544000662 putative GEF interaction site [polypeptide binding]; other site 716544000663 GTP/Mg2+ binding site [chemical binding]; other site 716544000664 Switch I region; other site 716544000665 G2 box; other site 716544000666 G3 box; other site 716544000667 Switch II region; other site 716544000668 G4 box; other site 716544000669 G5 box; other site 716544000670 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 716544000671 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 716544000672 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 716544000673 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 716544000674 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 716544000675 S17 interaction site [polypeptide binding]; other site 716544000676 S8 interaction site; other site 716544000677 16S rRNA interaction site [nucleotide binding]; other site 716544000678 streptomycin interaction site [chemical binding]; other site 716544000679 23S rRNA interaction site [nucleotide binding]; other site 716544000680 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 716544000681 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 716544000682 putative acyl-acceptor binding pocket; other site 716544000683 cytidylate kinase; Provisional; Region: cmk; PRK00023 716544000684 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 716544000685 CMP-binding site; other site 716544000686 The sites determining sugar specificity; other site 716544000687 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 716544000688 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 716544000689 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 716544000690 catalytic residue [active] 716544000691 putative FPP diphosphate binding site; other site 716544000692 putative FPP binding hydrophobic cleft; other site 716544000693 dimer interface [polypeptide binding]; other site 716544000694 putative IPP diphosphate binding site; other site 716544000695 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 716544000696 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 716544000697 GDP-binding site [chemical binding]; other site 716544000698 ACT binding site; other site 716544000699 IMP binding site; other site 716544000700 GTP-binding protein LepA; Provisional; Region: PRK05433 716544000701 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 716544000702 G1 box; other site 716544000703 putative GEF interaction site [polypeptide binding]; other site 716544000704 GTP/Mg2+ binding site [chemical binding]; other site 716544000705 Switch I region; other site 716544000706 G2 box; other site 716544000707 G3 box; other site 716544000708 Switch II region; other site 716544000709 G4 box; other site 716544000710 G5 box; other site 716544000711 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 716544000712 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 716544000713 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 716544000714 Thiamine pyrophosphokinase; Region: TPK; cd07995 716544000715 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 716544000716 active site 716544000717 dimerization interface [polypeptide binding]; other site 716544000718 thiamine binding site [chemical binding]; other site 716544000719 FAD binding domain; Region: FAD_binding_1; pfam00667 716544000720 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 716544000721 FAD binding pocket [chemical binding]; other site 716544000722 conserved FAD binding motif [chemical binding]; other site 716544000723 phosphate binding motif [ion binding]; other site 716544000724 beta-alpha-beta structure motif; other site 716544000725 NAD binding pocket [chemical binding]; other site 716544000726 Integral membrane protein TerC family; Region: TerC; cl10468 716544000727 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 716544000728 homotrimer interaction site [polypeptide binding]; other site 716544000729 zinc binding site [ion binding]; other site 716544000730 CDP-binding sites; other site 716544000731 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 716544000732 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 716544000733 hinge; other site 716544000734 active site 716544000735 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 716544000736 Radical SAM superfamily; Region: Radical_SAM; pfam04055 716544000737 FeS/SAM binding site; other site 716544000738 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; cl12031 716544000739 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 716544000740 metal ion-dependent adhesion site (MIDAS); other site 716544000741 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 716544000742 metal ion-dependent adhesion site (MIDAS); other site 716544000743 Gryzun, putative trafficking through Golgi; Region: Gryzun; pfam07919 716544000744 photosystem I assembly protein Ycf3; Region: ycf3; CHL00033 716544000745 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 716544000746 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 716544000747 dimer interface [polypeptide binding]; other site 716544000748 substrate binding site [chemical binding]; other site 716544000749 metal binding sites [ion binding]; metal-binding site 716544000750 ribonucleoside-triphosphate reductase, adenosylcobalamin-dependent; Region: RTPR; TIGR02505 716544000751 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 716544000752 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 716544000753 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 716544000754 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 716544000755 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 716544000756 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 716544000757 active site 716544000758 metal binding site [ion binding]; metal-binding site 716544000759 potential frameshift: common BLAST hit: gi|262341272|ref|YP_003284127.1| orotate phosphoribosyltransferase 716544000760 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 contains two...; Region: OMP_decarboxylase_like; cd04725 716544000761 active site 716544000762 dimer interface [polypeptide binding]; other site 716544000763 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 716544000764 Dihydroorotate dehydrogenase (DHOD) and Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the...; Region: DHOD_DHPD_FMN; cd02810 716544000765 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 716544000766 active site 716544000767 FMN binding site [chemical binding]; other site 716544000768 substrate binding site [chemical binding]; other site 716544000769 dihydroorotase, multifunctional complex type; Region: pyrC_multi; TIGR00857 716544000770 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 716544000771 active site 716544000772 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 716544000773 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 716544000774 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 716544000775 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 716544000776 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 716544000777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544000778 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 716544000779 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 716544000780 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 716544000781 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 716544000782 catalytic site [active] 716544000783 subunit interface [polypeptide binding]; other site 716544000784 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 716544000785 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 716544000786 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 716544000787 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 716544000788 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 716544000789 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 716544000790 substrate binding site [chemical binding]; other site 716544000791 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 716544000792 binding surface 716544000793 TPR motif; other site 716544000794 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 716544000795 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 716544000796 inhibitor-cofactor binding pocket; inhibition site 716544000797 pyridoxal 5'-phosphate binding site [chemical binding]; other site 716544000798 catalytic residue [active] 716544000799 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 716544000800 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 716544000801 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; cl12011 716544000802 Septum formation initiator; Region: DivIC; cl11433 716544000803 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 716544000804 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 716544000805 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 716544000806 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 716544000807 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 716544000808 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 716544000809 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 716544000810 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 716544000811 active site 716544000812 metal binding site [ion binding]; metal-binding site 716544000813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544000814 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 716544000815 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 716544000816 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 716544000817 zinc metallopeptidase RseP; Provisional; Region: PRK10779 716544000818 active site 716544000819 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 716544000820 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 716544000821 putative substrate binding region [chemical binding]; other site 716544000822 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 716544000823 active site 716544000824 Zn binding site [ion binding]; other site 716544000825 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 716544000826 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 716544000827 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544000828 Walker A/P-loop; other site 716544000829 ATP binding site [chemical binding]; other site 716544000830 Q-loop/lid; other site 716544000831 ABC transporter signature motif; other site 716544000832 Walker B; other site 716544000833 D-loop; other site 716544000834 H-loop/switch region; other site 716544000835 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 716544000836 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 716544000837 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 716544000838 Walker A/P-loop; other site 716544000839 ATP binding site [chemical binding]; other site 716544000840 Q-loop/lid; other site 716544000841 ABC transporter signature motif; other site 716544000842 Walker B; other site 716544000843 D-loop; other site 716544000844 H-loop/switch region; other site 716544000845 YcfA-like protein; Region: YcfA; cl00752 716544000846 UbiA prenyltransferase family; Region: UbiA; cl00337 716544000847 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 716544000848 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 716544000849 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 716544000850 hypothetical protein; Provisional; Region: PRK02250 716544000851 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 716544000852 SEC-C motif; Region: SEC-C; pfam02810 716544000853 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 716544000854 Peptidase M15; Region: Peptidase_M15_3; cl01194 716544000855 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 716544000856 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 716544000857 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 716544000858 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 716544000859 dimerization interface 3.5A [polypeptide binding]; other site 716544000860 active site 716544000861 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 716544000862 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 716544000863 putative active site [active] 716544000864 putative metal binding site [ion binding]; other site 716544000865 SWIB/MDM2 domain; Region: SWIB; cl02489 716544000866 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 716544000867 active site 716544000868 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 716544000869 peptide chain release factor 2; Provisional; Region: PRK05589 716544000870 RF-1 domain; Region: RF-1; cl02875 716544000871 RF-1 domain; Region: RF-1; cl02875 716544000872 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 716544000873 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 716544000874 Domain of unknown function DUF28; Region: DUF28; cl00361 716544000875 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 716544000876 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 716544000877 chorismate binding enzyme; Region: Chorismate_bind; cl10555 716544000878 Spc7 kinetochore protein; Region: Spc7; pfam08317 716544000879 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 716544000880 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 716544000881 pyridoxal 5'-phosphate binding site [chemical binding]; other site 716544000882 catalytic residue [active] 716544000883 RHS Repeat; Region: RHS_repeat; cl11982 716544000884 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 716544000885 RHS Repeat; Region: RHS_repeat; cl11982 716544000886 RHS Repeat; Region: RHS_repeat; cl11982 716544000887 prolyl-tRNA synthetase; Provisional; Region: PRK08661 716544000888 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 formation of...; Region: ProRS_core_arch_euk; cd00778 716544000889 dimer interface [polypeptide binding]; other site 716544000890 motif 1; other site 716544000891 active site 716544000892 motif 2; other site 716544000893 motif 3; other site 716544000894 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 716544000895 anticodon binding site; other site 716544000896 Protein of unknown function (DUF342); Region: DUF342; pfam03961 716544000897 Guanine nucleotide exchange factor for Ras-like small GTPases. Small GTP-binding proteins of the Ras superfamily function as molecular switches in fundamental events such as signal transduction, cytoskeleton dynamics and intracellular trafficking; Region: RasGEF; cl02485 716544000898 Ras interaction site [polypeptide binding]; other site 716544000899 Uncharacterized ACR, COG1565; Region: DUF185; pfam02636 716544000900 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 716544000901 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 716544000902 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 716544000903 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 716544000904 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 716544000905 putative acyl-acceptor binding pocket; other site 716544000906 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 716544000907 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 716544000908 homodimer interface [polypeptide binding]; other site 716544000909 oligonucleotide binding site [chemical binding]; other site 716544000910 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 716544000911 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 716544000912 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 716544000913 rod shape-determining protein MreC; Provisional; Region: PRK13922 716544000914 DNA helicase, putative; Region: TIGR00376 716544000915 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 716544000916 putative acyl-acceptor binding pocket; other site 716544000917 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 716544000918 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 716544000919 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 716544000920 Ligand binding site; other site 716544000921 Putative Catalytic site; other site 716544000922 DXD motif; other site 716544000923 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 716544000924 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 716544000925 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 716544000926 active site 716544000927 NTP binding site [chemical binding]; other site 716544000928 metal binding triad [ion binding]; metal-binding site 716544000929 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 716544000930 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 716544000931 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 716544000932 Coenzyme A binding pocket [chemical binding]; other site 716544000933 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 716544000934 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 716544000935 active site 716544000936 substrate binding site [chemical binding]; other site 716544000937 metal binding site [ion binding]; metal-binding site 716544000938 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 716544000939 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 716544000940 glutaminase active site [active] 716544000941 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 716544000942 dimer interface [polypeptide binding]; other site 716544000943 active site 716544000944 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 716544000945 dimer interface [polypeptide binding]; other site 716544000946 active site 716544000947 Amino acid permease; Region: AA_permease; cl00524 716544000948 Virulence protein [General function prediction only]; Region: COG3943 716544000949 exonuclease subunit SbcD; Provisional; Region: PRK10966 716544000950 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 716544000951 active site 716544000952 metal binding site [ion binding]; metal-binding site 716544000953 DNA binding site [nucleotide binding] 716544000954 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 716544000955 exonuclease SbcC; Region: sbcc; TIGR00618 716544000956 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544000957 Walker A/P-loop; other site 716544000958 ATP binding site [chemical binding]; other site 716544000959 Q-loop/lid; other site 716544000960 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 716544000961 ABC transporter signature motif; other site 716544000962 Walker B; other site 716544000963 D-loop; other site 716544000964 H-loop/switch region; other site 716544000965 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 716544000966 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 716544000967 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544000968 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 716544000969 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 716544000970 CoA-ligase; Region: Ligase_CoA; pfam00549 716544000971 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 716544000972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544000973 CoA-ligase; Region: Ligase_CoA; pfam00549 716544000974 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 716544000975 active site 716544000976 putative substrate binding region [chemical binding]; other site 716544000977 tetratricopeptide repeat protein; Provisional; Region: PRK11788 716544000978 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 716544000979 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544000980 ADP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: GlgC; COG0448 716544000981 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 716544000982 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 716544000983 protein binding site [polypeptide binding]; other site 716544000984 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 716544000985 protein binding site [polypeptide binding]; other site 716544000986 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 716544000987 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 716544000988 metal binding site [ion binding]; metal-binding site 716544000989 Peptidase family M48; Region: Peptidase_M48; cl12018 716544000990 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 716544000991 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 716544000992 glycogen/starch synthases, ADP-glucose type; Region: glgA; TIGR02095 716544000993 ADP-binding pocket [chemical binding]; other site 716544000994 homodimer interface [polypeptide binding]; other site 716544000995 glycogen branching enzyme; Provisional; Region: PRK12313 716544000996 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cd02688 716544000997 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 716544000998 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 716544000999 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 716544001000 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 716544001001 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 716544001002 Ligand Binding Site [chemical binding]; other site 716544001003 glucose-1-dehydrogenase; Provisional; Region: PRK08936 716544001004 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 716544001005 NAD binding site [chemical binding]; other site 716544001006 homodimer interface [polypeptide binding]; other site 716544001007 active site 716544001008 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 716544001009 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 716544001010 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 716544001011 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 716544001012 active site 716544001013 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 716544001014 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 716544001015 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 716544001016 enoyl-CoA hydratase; Provisional; Region: PRK06688 716544001017 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 716544001018 substrate binding site [chemical binding]; other site 716544001019 oxyanion hole (OAH) forming residues; other site 716544001020 trimer interface [polypeptide binding]; other site 716544001021 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 716544001022 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 716544001023 RHS Repeat; Region: RHS_repeat; cl11982 716544001024 RHS Repeat; Region: RHS_repeat; cl11982 716544001025 RHS Repeat; Region: RHS_repeat; cl11982 716544001026 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 716544001027 RHS Repeat; Region: RHS_repeat; cl11982 716544001028 RHS Repeat; Region: RHS_repeat; cl11982 716544001029 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 716544001030 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 716544001031 Pyocin large subunit [General function prediction only]; Region: COG5529 716544001032 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 716544001033 RHS Repeat; Region: RHS_repeat; cl11982 716544001034 RHS Repeat; Region: RHS_repeat; cl11982 716544001035 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 716544001036 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 716544001037 active site 716544001038 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 716544001039 B12 binding site [chemical binding]; other site 716544001040 cobalt ligand [ion binding]; other site 716544001041 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544001042 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 716544001043 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 716544001044 Peptidase family M23; Region: Peptidase_M23; pfam01551 716544001045 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 716544001046 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 716544001047 tetramer interface [polypeptide binding]; other site 716544001048 TPP-binding site [chemical binding]; other site 716544001049 heterodimer interface [polypeptide binding]; other site 716544001050 phosphorylation loop region [posttranslational modification] 716544001051 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 716544001052 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 716544001053 alpha subunit interface [polypeptide binding]; other site 716544001054 TPP binding site [chemical binding]; other site 716544001055 heterodimer interface [polypeptide binding]; other site 716544001056 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 716544001057 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 716544001058 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 716544001059 E3 interaction surface; other site 716544001060 lipoyl attachment site [posttranslational modification]; other site 716544001061 e3 binding domain; Region: E3_binding; pfam02817 716544001062 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 716544001063 Protein of unknown function, DUF488; Region: DUF488; cl01246 716544001064 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 716544001065 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 716544001066 heme-binding site [chemical binding]; other site 716544001067 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 716544001068 FAD binding pocket [chemical binding]; other site 716544001069 FAD binding motif [chemical binding]; other site 716544001070 phosphate binding motif [ion binding]; other site 716544001071 beta-alpha-beta structure motif; other site 716544001072 NAD binding pocket [chemical binding]; other site 716544001073 Heme binding pocket [chemical binding]; other site 716544001074 Arginase family; Region: Arginase; cl00306 716544001075 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 716544001076 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 716544001077 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; cl12011 716544001078 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; cl09108 716544001079 Transposase [DNA replication, recombination, and repair]; Region: COG5433 716544001080 Transposase [DNA replication, recombination, and repair]; Region: COG5433 716544001081 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 716544001082 Rrf2 family protein; Region: rrf2_super; TIGR00738 716544001083 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 716544001084 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 716544001085 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 716544001086 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 716544001087 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 716544001088 Transposase, Mutator family; Region: Transposase_mut; pfam00872 716544001089 MULE transposase domain; Region: MULE; pfam10551 716544001090 UbiA prenyltransferase family; Region: UbiA; cl00337 716544001091 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 716544001092 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 716544001093 Subunit I/III interface [polypeptide binding]; other site 716544001094 Subunit III/IV interface [polypeptide binding]; other site 716544001095 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 716544001096 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 716544001097 D-pathway; other site 716544001098 Putative ubiquinol binding site [chemical binding]; other site 716544001099 Low-spin heme (heme b) binding site [chemical binding]; other site 716544001100 Putative water exit pathway; other site 716544001101 Binuclear center (heme o3/CuB) [ion binding]; other site 716544001102 K-pathway; other site 716544001103 Putative proton exit pathway; other site 716544001104 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 716544001105 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 716544001106 Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains; Region: RhoGEF; cl02571 716544001107 GTPase interaction site [polypeptide binding]; other site 716544001108 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 716544001109 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 716544001110 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 716544001111 Peptidase M16C associated; Region: M16C_assoc; pfam08367 716544001112 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 716544001113 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 716544001114 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 716544001115 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 716544001116 LexA repressor; Validated; Region: PRK00215 716544001117 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 716544001118 Catalytic site [active] 716544001119 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 716544001120 active site 716544001121 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 716544001122 Amino acid permease; Region: AA_permease; cl00524 716544001123 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 716544001124 RmuC family; Region: RmuC; pfam02646 716544001125 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 716544001126 Transposase [DNA replication, recombination, and repair]; Region: COG5433 716544001127 Transposase [DNA replication, recombination, and repair]; Region: COG5433 716544001128 Transmembrane domain of unknown function (DUF3566); Region: DUF3566; pfam12089 716544001129 Bacterial SH3 domain; Region: SH3_3; cl02551 716544001130 Bacterial SH3 domain; Region: SH3_3; cl02551 716544001131 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 716544001132 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 716544001133 putative active site [active] 716544001134 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544001135 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 716544001136 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 716544001137 ATP binding site [chemical binding]; other site 716544001138 Mg++ binding site [ion binding]; other site 716544001139 motif III; other site 716544001140 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 716544001141 nucleotide binding region [chemical binding]; other site 716544001142 ATP-binding site [chemical binding]; other site 716544001143 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544001144 flavoprotein, HI0933 family; Region: TIGR00275 716544001145 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 716544001146 metal binding site [ion binding]; metal-binding site 716544001147 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 716544001148 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 716544001149 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544001150 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 716544001151 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 716544001152 Coenzyme A binding pocket [chemical binding]; other site 716544001153 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 716544001154 Predicted amidohydrolase [General function prediction only]; Region: COG0388 716544001155 putative active site [active] 716544001156 catalytic triad [active] 716544001157 putative dimer interface [polypeptide binding]; other site 716544001158 BON domain; Region: BON; cl02771 716544001159 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 716544001160 classical (c) SDRs; Region: SDR_c; cd05233 716544001161 NAD(P) binding site [chemical binding]; other site 716544001162 active site 716544001163 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 716544001164 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 716544001165 putative NAD(P) binding site [chemical binding]; other site 716544001166 putative substrate binding site [chemical binding]; other site 716544001167 catalytic Zn binding site [ion binding]; other site 716544001168 structural Zn binding site [ion binding]; other site 716544001169 dimer interface [polypeptide binding]; other site 716544001170 Cytochrome c [Energy production and conversion]; Region: COG3258 716544001171 Cytochrome c; Region: Cytochrom_C; cl11414 716544001172 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 716544001173 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 716544001174 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 716544001175 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 716544001176 active site 716544001177 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 716544001178 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 716544001179 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 716544001180 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 716544001181 active site 716544001182 catalytic tetrad [active] 716544001183 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 716544001184 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 716544001185 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 716544001186 substrate binding pocket [chemical binding]; other site 716544001187 substrate-Mg2+ binding site; other site 716544001188 aspartate-rich region 1; other site 716544001189 aspartate-rich region 2; other site 716544001190 Transposase, Mutator family; Region: Transposase_mut; pfam00872 716544001191 MULE transposase domain; Region: MULE; pfam10551 716544001192 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 716544001193 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 716544001194 Protein of unknown function (DUF1016); Region: DUF1016; cl01979 716544001195 Protein of unknown function (DUF1016); Region: DUF1016; cl01979 716544001196 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 716544001197 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; cd00188 716544001198 active site 716544001199 metal binding site [ion binding]; metal-binding site 716544001200 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 716544001201 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 716544001202 HIGH motif; other site 716544001203 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 716544001204 active site 716544001205 KMSKS motif; other site 716544001206 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 716544001207 tRNA binding surface [nucleotide binding]; other site 716544001208 anticodon binding site; other site 716544001209 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 716544001210 Phd_YefM; Region: PhdYeFM; cl09153 716544001211 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 716544001212 S-adenosylmethionine binding site [chemical binding]; other site 716544001213 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 716544001214 Catalytic site [active] 716544001215 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 716544001216 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 716544001217 Glycerate kinase family; Region: Gly_kinase; cl00841 716544001218 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 716544001219 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 716544001220 active site 716544001221 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 716544001222 Isochorismatase family; Region: Isochorismatase; pfam00857 716544001223 catalytic triad [active] 716544001224 metal binding site [ion binding]; metal-binding site 716544001225 conserved cis-peptide bond; other site 716544001226 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 716544001227 Uncharacterised ACR, YggU family COG1872; Region: DUF167; cl00811 716544001228 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544001229 NAD(P) binding site [chemical binding]; other site 716544001230 active site 716544001231 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 716544001232 classical (c) SDRs; Region: SDR_c; cd05233 716544001233 NAD(P) binding site [chemical binding]; other site 716544001234 active site 716544001235 putative transposase OrfB; Reviewed; Region: PHA02517 716544001236 Integrase core domain; Region: rve; cl01316 716544001237 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 716544001238 Transposase [DNA replication, recombination, and repair]; Region: COG5433 716544001239 Transposase [DNA replication, recombination, and repair]; Region: COG5433 716544001240 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 716544001241 Transposase, Mutator family; Region: Transposase_mut; pfam00872 716544001242 MULE transposase domain; Region: MULE; pfam10551 716544001243 large tegument protein UL36; Provisional; Region: PHA03247 716544001244 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 716544001245 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 716544001246 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 716544001247 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 716544001248 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 716544001249 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 716544001250 Transcriptional regulator [Transcription]; Region: LysR; COG0583 716544001251 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 716544001252 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 716544001253 putative effector binding pocket; other site 716544001254 dimerization interface [polypeptide binding]; other site 716544001255 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 716544001256 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 716544001257 putative substrate translocation pore; other site 716544001258 Putative cyclase; Region: Cyclase; cl00814 716544001259 Domain of unknown function DUF21; Region: DUF21; pfam01595 716544001260 FOG: CBS domain [General function prediction only]; Region: COG0517 716544001261 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 716544001262 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl12032 716544001263 hypothetical protein; Reviewed; Region: PRK09588 716544001264 Archease protein family (DUF101/UPF0211); Region: Archease; cl00606 716544001265 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 716544001266 nudix motif; other site 716544001267 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 716544001268 nudix motif; other site 716544001269 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 716544001270 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 716544001271 NADP binding site [chemical binding]; other site 716544001272 dimer interface [polypeptide binding]; other site 716544001273 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 716544001274 Protein of unknown function (DUF1622); Region: DUF1622; cl01991 716544001275 Uncharacterised protein family (UPF0160); Region: UPF0160; cl01749 716544001276 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 716544001277 nucleotide binding site/active site [active] 716544001278 HIT family signature motif; other site 716544001279 catalytic residue [active] 716544001280 Isochorismatase family; Region: Isochorismatase; pfam00857 716544001281 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 716544001282 catalytic triad [active] 716544001283 dimer interface [polypeptide binding]; other site 716544001284 conserved cis-peptide bond; other site 716544001285 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 716544001286 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 716544001287 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 716544001288 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 716544001289 dimer interface [polypeptide binding]; other site 716544001290 conserved gate region; other site 716544001291 ABC-ATPase subunit interface; other site 716544001292 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 716544001293 NMT1/THI5 like; Region: NMT1; pfam09084 716544001294 substrate binding pocket [chemical binding]; other site 716544001295 membrane-bound complex binding site; other site 716544001296 hinge residues; other site 716544001297 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544001298 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 716544001299 Walker A/P-loop; other site 716544001300 ATP binding site [chemical binding]; other site 716544001301 Q-loop/lid; other site 716544001302 ABC transporter signature motif; other site 716544001303 Walker B; other site 716544001304 D-loop; other site 716544001305 H-loop/switch region; other site 716544001306 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 716544001307 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 716544001308 active site 716544001309 Amino acid permease; Region: AA_permease; cl00524 716544001310 Fe-S metabolism associated domain; Region: SufE; cl00951 716544001311 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 716544001312 rRNA binding site [nucleotide binding]; other site 716544001313 predicted 30S ribosome binding site; other site 716544001314 elongation factor Tu; Reviewed; Region: PRK12735 716544001315 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 716544001316 G1 box; other site 716544001317 GEF interaction site [polypeptide binding]; other site 716544001318 GTP/Mg2+ binding site [chemical binding]; other site 716544001319 Switch I region; other site 716544001320 G2 box; other site 716544001321 G3 box; other site 716544001322 Switch II region; other site 716544001323 G4 box; other site 716544001324 G5 box; other site 716544001325 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 716544001326 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 716544001327 Antibiotic Binding Site [chemical binding]; other site 716544001328 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 716544001329 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 716544001330 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 716544001331 putative homodimer interface [polypeptide binding]; other site 716544001332 KOW motif; Region: KOW; cl00354 716544001333 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 716544001334 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 716544001335 23S rRNA interface [nucleotide binding]; other site 716544001336 L7/L12 interface [polypeptide binding]; other site 716544001337 putative thiostrepton binding site; other site 716544001338 L25 interface [polypeptide binding]; other site 716544001339 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 716544001340 mRNA/rRNA interface [nucleotide binding]; other site 716544001341 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 716544001342 23S rRNA interface [nucleotide binding]; other site 716544001343 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 716544001344 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 716544001345 core dimer interface [polypeptide binding]; other site 716544001346 peripheral dimer interface [polypeptide binding]; other site 716544001347 L10 interface [polypeptide binding]; other site 716544001348 L11 interface [polypeptide binding]; other site 716544001349 putative EF-Tu interaction site [polypeptide binding]; other site 716544001350 putative EF-G interaction site [polypeptide binding]; other site 716544001351 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; cl04593 716544001352 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 716544001353 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 716544001354 RPB11 interaction site [polypeptide binding]; other site 716544001355 RPB12 interaction site [polypeptide binding]; other site 716544001356 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 716544001357 RPB3 interaction site [polypeptide binding]; other site 716544001358 RPB1 interaction site [polypeptide binding]; other site 716544001359 RPB11 interaction site [polypeptide binding]; other site 716544001360 RPB10 interaction site [polypeptide binding]; other site 716544001361 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 716544001362 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 716544001363 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 716544001364 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 716544001365 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 716544001366 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 716544001367 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 716544001368 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 716544001369 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 716544001370 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 716544001371 DNA binding site [nucleotide binding] 716544001372 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 716544001373 TLC ATP/ADP transporter; Region: TLC; cl03940 716544001374 transaldolase-like protein; Provisional; Region: PTZ00411 716544001375 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 716544001376 active site 716544001377 dimer interface [polypeptide binding]; other site 716544001378 catalytic residue [active] 716544001379 Plant ATP synthase F0; Region: YMF19; cl07975 716544001380 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 716544001381 V-type ATP synthase subunit A; Provisional; Region: PRK04192 716544001382 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 716544001383 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 716544001384 Walker A motif/ATP binding site; other site 716544001385 Walker B motif; other site 716544001386 V-type ATP synthase subunit B; Provisional; Region: PRK02118 716544001387 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 716544001388 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 716544001389 Walker A motif homologous position; other site 716544001390 Walker B motif; other site 716544001391 ATP synthase subunit D; Region: ATP-synt_D; cl00613 716544001392 V-type ATP synthase subunit I; Validated; Region: PRK05771 716544001393 V-type ATP synthase subunit K; Provisional; Region: PRK09621 716544001394 fumarate hydratase; Reviewed; Region: fumC; PRK00485 716544001395 Class II fumarases; Region: Fumarase_classII; cd01362 716544001396 active site 716544001397 tetramer interface [polypeptide binding]; other site 716544001398 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 716544001399 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 716544001400 Walker A motif; other site 716544001401 ATP binding site [chemical binding]; other site 716544001402 Walker B motif; other site 716544001403 arginine finger; other site 716544001404 F-box domain; Region: F-box; cl02535 716544001405 DNA polymerase III subunit epsilon; Validated; Region: PRK06309 716544001406 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 716544001407 active site 716544001408 substrate binding site [chemical binding]; other site 716544001409 catalytic site [active] 716544001410 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 716544001411 Family of unknown function (DUF1790); Region: DUF1790; cl02283 716544001412 Global regulator protein family; Region: CsrA; cl00670 716544001413 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 716544001414 RHS Repeat; Region: RHS_repeat; cl11982 716544001415 RHS Repeat; Region: RHS_repeat; cl11982 716544001416 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 716544001417 RHS Repeat; Region: RHS_repeat; cl11982 716544001418 RHS Repeat; Region: RHS_repeat; cl11982 716544001419 RHS Repeat; Region: RHS_repeat; cl11982 716544001420 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 716544001421 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 716544001422 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 716544001423 putative RNAase interaction site [polypeptide binding]; other site 716544001424 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 716544001425 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 716544001426 putative transposase OrfB; Reviewed; Region: PHA02517 716544001427 Integrase core domain; Region: rve; cl01316 716544001428 putative transposase OrfB; Reviewed; Region: PHA02517 716544001429 Integrase core domain; Region: rve; cl01316 716544001430 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 716544001431 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 716544001432 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 716544001433 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 716544001434 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 716544001435 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 716544001436 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 716544001437 Transposase, Mutator family; Region: Transposase_mut; pfam00872 716544001438 MULE transposase domain; Region: MULE; pfam10551 716544001439 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 716544001440 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 716544001441 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 716544001442 active site 716544001443 DEAD-like helicases superfamily; Region: DEXDc; smart00487 716544001444 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544001445 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 716544001446 NAD(P) binding site [chemical binding]; other site 716544001447 active site 716544001448 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 716544001449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544001450 NAD(P) binding site [chemical binding]; other site 716544001451 active site 716544001452 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 716544001453 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 716544001454 putative NAD(P) binding site [chemical binding]; other site 716544001455 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 716544001456 homotrimer interaction site [polypeptide binding]; other site 716544001457 putative active site [active] 716544001458 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 716544001459 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 716544001460 active site 716544001461 metal binding site [ion binding]; metal-binding site 716544001462 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 716544001463 ATP-binding site [chemical binding]; other site 716544001464 Sugar specificity; other site 716544001465 Pyrimidine base specificity; other site 716544001466 Protein of unknown function (DUF541); Region: SIMPL; cl01077 716544001467 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 716544001468 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 716544001469 putative active site; other site 716544001470 catalytic residue [active] 716544001471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544001472 NAD(P) binding site [chemical binding]; other site 716544001473 active site 716544001474 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 716544001475 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 716544001476 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 716544001477 DNA binding site [nucleotide binding] 716544001478 active site 716544001479 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 716544001480 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 716544001481 tetramer interface [polypeptide binding]; other site 716544001482 heme binding pocket [chemical binding]; other site 716544001483 NADPH binding site [chemical binding]; other site 716544001484 Transposase, Mutator family; Region: Transposase_mut; pfam00872 716544001485 MULE transposase domain; Region: MULE; pfam10551 716544001486 putative transposase OrfB; Reviewed; Region: PHA02517 716544001487 Integrase core domain; Region: rve; cl01316 716544001488 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 716544001489 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 716544001490 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 716544001491 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 716544001492 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 716544001493 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; cl15358 716544001494 Integrase core domain; Region: rve; cl01316 716544001495 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 716544001496 non-specific DNA binding site [nucleotide binding]; other site 716544001497 salt bridge; other site 716544001498 sequence-specific DNA binding site [nucleotide binding]; other site 716544001499 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 716544001500 active site 716544001501 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 716544001502 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544001503 Walker A motif; other site 716544001504 ATP binding site [chemical binding]; other site 716544001505 Walker B motif; other site 716544001506 large terminase protein; Provisional; Region: 17; PHA02533 716544001507 Terminase-like family; Region: Terminase_6; pfam03237 716544001508 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 716544001509 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 716544001510 active site 716544001511 metal binding site [ion binding]; metal-binding site 716544001512 interdomain interaction site; other site 716544001513 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544001514 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 716544001515 Walker A motif; other site 716544001516 ATP binding site [chemical binding]; other site 716544001517 Walker B motif; other site 716544001518 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 716544001519 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 716544001520 DNA binding site [nucleotide binding] 716544001521 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 716544001522 Phage integrase family; Region: Phage_integrase; pfam00589 716544001523 DNA binding site [nucleotide binding] 716544001524 Int/Topo IB signature motif; other site 716544001525 active site 716544001526 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 716544001527 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 716544001528 active site 716544001529 Zn binding site [ion binding]; other site 716544001530 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional; Region: PRK11930 716544001531 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 716544001532 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 716544001533 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 716544001534 active site 716544001535 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 716544001536 dimer interface [polypeptide binding]; other site 716544001537 substrate binding site [chemical binding]; other site 716544001538 catalytic residues [active] 716544001539 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 716544001540 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 716544001541 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 716544001542 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 716544001543 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 716544001544 Ligand Binding Site [chemical binding]; other site 716544001545 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 716544001546 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 716544001547 Walker A motif; other site 716544001548 ATP binding site [chemical binding]; other site 716544001549 Walker B motif; other site 716544001550 arginine finger; other site 716544001551 Peptidase family M41; Region: Peptidase_M41; pfam01434 716544001552 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 716544001553 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 716544001554 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 716544001555 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 716544001556 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 716544001557 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 716544001558 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 716544001559 putative nucleic acid binding region [nucleotide binding]; other site 716544001560 G-X-X-G motif; other site 716544001561 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 716544001562 RNA binding site [nucleotide binding]; other site 716544001563 domain interface; other site 716544001564 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 716544001565 16S/18S rRNA binding site [nucleotide binding]; other site 716544001566 S13e-L30e interaction site [polypeptide binding]; other site 716544001567 25S rRNA binding site [nucleotide binding]; other site 716544001568 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 716544001569 nucleoside/Zn binding site; other site 716544001570 dimer interface [polypeptide binding]; other site 716544001571 catalytic motif [active] 716544001572 Rhomboid family; Region: Rhomboid; cl11446 716544001573 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 716544001574 peptide chain release factor 1; Validated; Region: prfA; PRK00591 716544001575 RF-1 domain; Region: RF-1; cl02875 716544001576 RF-1 domain; Region: RF-1; cl02875 716544001577 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 716544001578 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; cl12011 716544001579 signal recognition particle protein; Provisional; Region: PRK10867 716544001580 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 716544001581 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 716544001582 P loop; other site 716544001583 GTP binding site [chemical binding]; other site 716544001584 Signal peptide binding domain; Region: SRP_SPB; pfam02978 716544001585 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 716544001586 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 716544001587 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 716544001588 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 716544001589 RNA/DNA hybrid binding site [nucleotide binding]; other site 716544001590 active site 716544001591 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 716544001592 putative acyl-acceptor binding pocket; other site 716544001593 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 716544001594 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 716544001595 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 716544001596 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 716544001597 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 716544001598 Protein of unknown function (DUF3638); Region: DUF3638; pfam12340 716544001599 hypothetical protein; Provisional; Region: PRK11820 716544001600 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 716544001601 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 716544001602 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 716544001603 catalytic site [active] 716544001604 G-X2-G-X-G-K; other site 716544001605 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 716544001606 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 716544001607 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 716544001608 active site 716544001609 HIGH motif; other site 716544001610 KMSKS motif; other site 716544001611 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 716544001612 tRNA binding surface [nucleotide binding]; other site 716544001613 anticodon binding site; other site 716544001614 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 716544001615 dimer interface [polypeptide binding]; other site 716544001616 putative tRNA-binding site [nucleotide binding]; other site 716544001617 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 716544001618 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 716544001619 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 716544001620 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 716544001621 active site 716544001622 Zn binding site [ion binding]; other site 716544001623 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 716544001624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544001625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544001626 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 716544001627 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 716544001628 RNA/DNA binding site [nucleotide binding]; other site 716544001629 RRM dimerization site [polypeptide binding]; other site 716544001630 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 716544001631 binding surface 716544001632 TPR motif; other site 716544001633 malate synthase A; Region: malate_syn_A; TIGR01344 716544001634 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 716544001635 active site 716544001636 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 716544001637 tetramer interface [polypeptide binding]; other site 716544001638 active site 716544001639 Mg2+/Mn2+ binding site [ion binding]; other site 716544001640 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 716544001641 methionine aminopeptidase; Provisional; Region: PRK12318 716544001642 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 716544001643 active site 716544001644 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; cl12011 716544001645 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 716544001646 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 716544001647 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 716544001648 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 716544001649 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14095 716544001650 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 716544001651 active site 716544001652 dimer interface [polypeptide binding]; other site 716544001653 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 716544001654 dimer interface [polypeptide binding]; other site 716544001655 active site 716544001656 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 716544001657 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 716544001658 Int/Topo IB signature motif; other site 716544001659 active site 716544001660 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 716544001661 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 716544001662 binding surface 716544001663 TPR motif; other site 716544001664 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 716544001665 Lumazine binding domain; Region: Lum_binding; pfam00677 716544001666 Lumazine binding domain; Region: Lum_binding; pfam00677 716544001667 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 716544001668 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 716544001669 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 716544001670 L-asparaginase II; Region: Asparaginase_II; cl01842 716544001671 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 716544001672 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 716544001673 GatB domain; Region: GatB_Yqey; cl11497 716544001674 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 716544001675 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 716544001676 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 716544001677 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 716544001678 putative catalytic residue [active] 716544001679 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 716544001680 TIGR01777 family protein; Region: yfcH 716544001681 putative NAD(P) binding site [chemical binding]; other site 716544001682 putative active site [active] 716544001683 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 716544001684 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 716544001685 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 716544001686 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 716544001687 Integrase core domain; Region: rve; cl01316 716544001688 transposase/IS protein; Provisional; Region: PRK09183 716544001689 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 716544001690 Walker A motif; other site 716544001691 ATP binding site [chemical binding]; other site 716544001692 Walker B motif; other site 716544001693 arginine finger; other site 716544001694 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 716544001695 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 716544001696 Integrase core domain; Region: rve; cl01316 716544001697 Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly...; Region: Peptidase_C19; cd02257 716544001698 Ubiquitin carboxyl-terminal hydrolase; Region: UCH; pfam00443 716544001699 active site 716544001700 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 716544001701 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 716544001702 Walker A/P-loop; other site 716544001703 ATP binding site [chemical binding]; other site 716544001704 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 716544001705 ABC transporter signature motif; other site 716544001706 Walker B; other site 716544001707 D-loop; other site 716544001708 H-loop/switch region; other site 716544001709 ribonuclease HIII; Provisional; Region: PRK00996 716544001710 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 716544001711 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 716544001712 RNA/DNA hybrid binding site [nucleotide binding]; other site 716544001713 active site 716544001714 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 716544001715 Domain of unknown function (DUF368); Region: DUF368; cl00893 716544001716 Domain of unknown function (DUF368); Region: DUF368; cl00893 716544001717 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 716544001718 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 716544001719 dimerization interface 3.5A [polypeptide binding]; other site 716544001720 active site 716544001721 MarC family integral membrane protein; Region: MarC; cl00919 716544001722 MarC family integral membrane protein; Region: MarC; cl00919 716544001723 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 716544001724 putative active site [active] 716544001725 putative metal binding site [ion binding]; other site 716544001726 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 716544001727 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 716544001728 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 716544001729 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_IV; cd01994 716544001730 Ligand Binding Site [chemical binding]; other site 716544001731 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 716544001732 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 716544001733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 716544001734 homodimer interface [polypeptide binding]; other site 716544001735 catalytic residue [active] 716544001736 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 716544001737 dihydrodipicolinate synthase; Region: dapA; TIGR00674 716544001738 dimer interface [polypeptide binding]; other site 716544001739 active site 716544001740 catalytic residue [active] 716544001741 dihydrodipicolinate reductase; Provisional; Region: PRK00048 716544001742 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544001743 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 716544001744 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 716544001745 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 716544001746 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 716544001747 Protein of unknown function (DUF423); Region: DUF423; cl01008 716544001748 Putative catalytic domain, repeat 1, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_1; cd09172 716544001749 putative active site [active] 716544001750 catalytic site [active] 716544001751 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 716544001752 putative active site [active] 716544001753 catalytic site [active] 716544001754 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 716544001755 Putative ATPase (DUF699); Region: DUF699; pfam05127 716544001756 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 716544001757 DNA primase; Validated; Region: dnaG; PRK05667 716544001758 CHC2 zinc finger; Region: zf-CHC2; cl15369 716544001759 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 716544001760 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 716544001761 active site 716544001762 interdomain interaction site; other site 716544001763 metal binding site [ion binding]; metal-binding site 716544001764 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 716544001765 Protein of unknown function, DUF393; Region: DUF393; cl01136 716544001766 hypothetical protein; Provisional; Region: PRK06849 716544001767 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 716544001768 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 716544001769 Uncharacterized conserved protein [Function unknown]; Region: COG1624 716544001770 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 716544001771 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 716544001772 dihydropteroate synthase; Region: DHPS; TIGR01496 716544001773 substrate binding pocket [chemical binding]; other site 716544001774 dimer interface [polypeptide binding]; other site 716544001775 inhibitor binding site; inhibition site 716544001776 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 716544001777 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 716544001778 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 716544001779 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 716544001780 Integrase core domain; Region: rve; cl01316 716544001781 chromosome segregation protein; Provisional; Region: PRK03918 716544001782 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 716544001783 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 716544001784 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 716544001785 FeS/SAM binding site; other site 716544001786 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 716544001787 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 716544001788 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 716544001789 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 716544001790 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 716544001791 FAD binding domain; Region: FAD_binding_4; pfam01565 716544001792 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 716544001793 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 716544001794 putative RNA binding site [nucleotide binding]; other site 716544001795 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544001796 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 716544001797 active site 716544001798 substrate binding site [chemical binding]; other site 716544001799 catalytic site [active] 716544001800 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 716544001801 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; cl12011 716544001802 Permease family; Region: Xan_ur_permease; cl00967 716544001803 Protein of unknown function (DUF322); Region: DUF322; cl00574 716544001804 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 716544001805 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 716544001806 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 716544001807 Ribonuclease P; Region: Ribonuclease_P; cl00457 716544001808 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 716544001809 Domain of unknown function (DUF367); Region: DUF367; pfam04034 716544001810 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 716544001811 adenosine kinase; Provisional; Region: PTZ00247 716544001812 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 adenosine...; Region: adenosine_kinase; cd01168 716544001813 substrate binding site [chemical binding]; other site 716544001814 ATP binding site [chemical binding]; other site 716544001815 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 716544001816 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 716544001817 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 716544001818 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 716544001819 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 716544001820 5S rRNA interface [nucleotide binding]; other site 716544001821 CTC domain interface [polypeptide binding]; other site 716544001822 L16 interface [polypeptide binding]; other site 716544001823 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 716544001824 putative active site [active] 716544001825 catalytic residue [active] 716544001826 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 716544001827 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 716544001828 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 716544001829 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 716544001830 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 716544001831 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 716544001832 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 716544001833 NADP binding site [chemical binding]; other site 716544001834 homopentamer interface [polypeptide binding]; other site 716544001835 substrate binding site [chemical binding]; other site 716544001836 active site 716544001837 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 716544001838 putative ribose interaction site [chemical binding]; other site 716544001839 putative ADP binding site [chemical binding]; other site 716544001840 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 716544001841 putative transposase OrfB; Reviewed; Region: PHA02517 716544001842 Integrase core domain; Region: rve; cl01316 716544001843 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 716544001844 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 716544001845 FAD binding domain; Region: FAD_binding_4; pfam01565 716544001846 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 716544001847 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 716544001848 Succinylarginine dihydrolase; Region: AstB; cl01511 716544001849 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 716544001850 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 716544001851 NAD(P) binding site [chemical binding]; other site 716544001852 catalytic residues [active] 716544001853 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 716544001854 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; cl15358 716544001855 Integrase core domain; Region: rve; cl01316 716544001856 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 716544001857 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 716544001858 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 716544001859 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 716544001860 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 716544001861 catalytic residue [active] 716544001862 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 716544001863 Peptidase family M20/M25/M40; Region: Peptidase_M20; pfam01546 716544001864 metal binding site [ion binding]; metal-binding site 716544001865 dimer interface [polypeptide binding]; other site 716544001866 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 716544001867 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; cl11420 716544001868 MAEBL; Provisional; Region: PTZ00121 716544001869 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 716544001870 Clp amino terminal domain; Region: Clp_N; pfam02861 716544001871 Clp amino terminal domain; Region: Clp_N; pfam02861 716544001872 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 716544001873 Walker A motif; other site 716544001874 ATP binding site [chemical binding]; other site 716544001875 Walker B motif; other site 716544001876 arginine finger; other site 716544001877 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 716544001878 Walker A motif; other site 716544001879 ATP binding site [chemical binding]; other site 716544001880 Walker B motif; other site 716544001881 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 716544001882 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 716544001883 Uncharacterized conserved protein [Function unknown]; Region: COG2912 716544001884 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 716544001885 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 716544001886 TPR motif; other site 716544001887 binding surface 716544001888 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 716544001889 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 716544001890 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 the guanine...; Region: IMPDH; cd00381 716544001891 active site 716544001892 Tir chaperone protein (CesT); Region: CesT; cl08444 716544001893 HrpJ-like domain; Region: HrpJ; cl15454 716544001894 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 716544001895 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 716544001896 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 716544001897 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; pfam01312 716544001898 GTP-binding protein YchF; Reviewed; Region: PRK09601 716544001899 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 716544001900 G1 box; other site 716544001901 GTP/Mg2+ binding site [chemical binding]; other site 716544001902 Switch I region; other site 716544001903 G2 box; other site 716544001904 Switch II region; other site 716544001905 G3 box; other site 716544001906 G4 box; other site 716544001907 G5 box; other site 716544001908 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 716544001909 BTB/POZ domain; Region: BTB; cl02518 716544001910 Antagonist of mitotic exit network protein 1; Region: AMN1; cl15308 716544001911 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 716544001912 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 716544001913 active site 716544001914 Riboflavin kinase; Region: Flavokinase; cl03312 716544001915 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 716544001916 RNA binding site [nucleotide binding]; other site 716544001917 active site 716544001918 Ribosome-binding factor A; Region: RBFA; cl00542 716544001919 translation initiation factor IF-2; Region: IF-2; TIGR00487 716544001920 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 716544001921 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases; Region: IF2_eIF5B; cd01887 716544001922 G1 box; other site 716544001923 putative GEF interaction site [polypeptide binding]; other site 716544001924 GTP/Mg2+ binding site [chemical binding]; other site 716544001925 Switch I region; other site 716544001926 G2 box; other site 716544001927 G3 box; other site 716544001928 Switch II region; other site 716544001929 G4 box; other site 716544001930 G5 box; other site 716544001931 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 716544001932 Translation-initiation factor 2; Region: IF-2; pfam11987 716544001933 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 716544001934 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 716544001935 NusA N-terminal domain; Region: NusA_N; pfam08529 716544001936 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 716544001937 RNA binding site [nucleotide binding]; other site 716544001938 homodimer interface [polypeptide binding]; other site 716544001939 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 716544001940 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 716544001941 RNA binding site [nucleotide binding]; other site 716544001942 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 716544001943 RNA binding site [nucleotide binding]; other site 716544001944 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 716544001945 RNA binding site [nucleotide binding]; other site 716544001946 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 716544001947 RNA binding site [nucleotide binding]; other site 716544001948 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 of...; Region: S1_RPS1_repeat_ec5; cd05690 716544001949 RNA binding site [nucleotide binding]; other site 716544001950 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 716544001951 RNA binding site [nucleotide binding]; other site 716544001952 domain interface; other site 716544001953 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 716544001954 active site 716544001955 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 716544001956 putative catalytic residues [active] 716544001957 putative nucleotide binding site [chemical binding]; other site 716544001958 putative aspartate binding site [chemical binding]; other site 716544001959 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 716544001960 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 716544001961 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 716544001962 substrate binding site [chemical binding]; other site 716544001963 hexamer interface [polypeptide binding]; other site 716544001964 metal binding site [ion binding]; metal-binding site 716544001965 elongation factor P; Provisional; Region: PRK12426 716544001966 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 716544001967 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 716544001968 RNA binding site [nucleotide binding]; other site 716544001969 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 716544001970 RNA binding site [nucleotide binding]; other site 716544001971 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 716544001972 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 716544001973 carboxyltransferase (CT) interaction site; other site 716544001974 biotinylation site [posttranslational modification]; other site 716544001975 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 716544001976 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 716544001977 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 716544001978 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 716544001979 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 716544001980 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 716544001981 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 716544001982 Uncharacterized conserved protein [Function unknown]; Region: COG1284 716544001983 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 716544001984 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 716544001985 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 716544001986 Survival protein SurE; Region: SurE; cl00448 716544001987 TraB family; Region: TraB; cl12050 716544001988 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 716544001989 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 716544001990 Walker A motif; other site 716544001991 ATP binding site [chemical binding]; other site 716544001992 Walker B motif; other site 716544001993 arginine finger; other site 716544001994 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 716544001995 Ligand Binding Site [chemical binding]; other site 716544001996 SEC-C motif; Region: SEC-C; pfam02810 716544001997 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 716544001998 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 716544001999 S-adenosylmethionine binding site [chemical binding]; other site 716544002000 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 716544002001 SelR domain; Region: SelR; cl00369 716544002002 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 716544002003 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544002004 putative bacillithiol system thiol disulfide oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 716544002005 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544002006 aconitate hydratase; Validated; Region: PRK09277 716544002007 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 716544002008 substrate binding site [chemical binding]; other site 716544002009 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 716544002010 ligand binding site [chemical binding]; other site 716544002011 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 716544002012 substrate binding site [chemical binding]; other site 716544002013 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 716544002014 nucleoside/Zn binding site; other site 716544002015 dimer interface [polypeptide binding]; other site 716544002016 catalytic motif [active] 716544002017 Protein of unknown function (DUF1551); Region: DUF1551; pfam07585 716544002018 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 716544002019 EamA-like transporter family; Region: EamA; cl01037 716544002020 EamA-like transporter family; Region: EamA; cl01037 716544002021 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 716544002022 Thymidine kinase; Region: TK; cl00631 716544002023 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 716544002024 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 716544002025 ABC transporter; Region: ABC_tran_2; pfam12848 716544002026 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 716544002027 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 716544002028 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 716544002029 Poly A polymerase head domain; Region: PolyA_pol; cl14657 716544002030 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 716544002031 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 716544002032 active site 716544002033 catalytic site [active] 716544002034 glycerol-3-phosphate dehydrogenase; Region: PLN02464 716544002035 Domain of unknown function DUF20; Region: UPF0118; cl00465 716544002036 Flagellin N-methylase; Region: FliB; cl00497 716544002037 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 716544002038 Domain of unknown function (DUF955); Region: DUF955; cl01076 716544002039 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 716544002040 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 716544002041 GIY-YIG motif/motif A; other site 716544002042 active site 716544002043 catalytic site [active] 716544002044 putative DNA binding site [nucleotide binding]; other site 716544002045 metal binding site [ion binding]; metal-binding site 716544002046 UvrB/uvrC motif; Region: UVR; pfam02151 716544002047 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 716544002048 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 716544002049 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 716544002050 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 716544002051 anticodon binding site; other site 716544002052 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 716544002053 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 716544002054 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 716544002055 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 716544002056 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 716544002057 23S rRNA binding site [nucleotide binding]; other site 716544002058 L21 binding site [polypeptide binding]; other site 716544002059 L13 binding site [polypeptide binding]; other site 716544002060 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 716544002061 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 716544002062 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 716544002063 dimer interface [polypeptide binding]; other site 716544002064 motif 1; other site 716544002065 active site 716544002066 motif 2; other site 716544002067 motif 3; other site 716544002068 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 716544002069 RNA binding surface [nucleotide binding]; other site 716544002070 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 716544002071 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 716544002072 active site 716544002073 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 716544002074 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 716544002075 putative active site [active] 716544002076 DNA topoisomerase III; Provisional; Region: PRK07726 716544002077 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 716544002078 active site 716544002079 putative interdomain interaction site [polypeptide binding]; other site 716544002080 putative metal-binding site [ion binding]; other site 716544002081 putative nucleotide binding site [chemical binding]; other site 716544002082 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 716544002083 domain I; other site 716544002084 DNA binding groove [nucleotide binding] 716544002085 phosphate binding site [ion binding]; other site 716544002086 domain II; other site 716544002087 domain III; other site 716544002088 nucleotide binding site [chemical binding]; other site 716544002089 catalytic site [active] 716544002090 domain IV; other site 716544002091 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 716544002092 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 716544002093 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 716544002094 dimer interface [polypeptide binding]; other site 716544002095 conserved gate region; other site 716544002096 putative PBP binding loops; other site 716544002097 ABC-ATPase subunit interface; other site 716544002098 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 716544002099 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 716544002100 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544002101 Walker A/P-loop; other site 716544002102 ATP binding site [chemical binding]; other site 716544002103 Q-loop/lid; other site 716544002104 ABC transporter signature motif; other site 716544002105 Walker B; other site 716544002106 D-loop; other site 716544002107 H-loop/switch region; other site 716544002108 TOBE domain; Region: TOBE_2; cl01440 716544002109 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 716544002110 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 716544002111 FeS/SAM binding site; other site 716544002112 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 716544002113 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544002114 DRTGG domain; Region: DRTGG; cl12147 716544002115 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. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 716544002116 nudix motif; other site 716544002117 Ferritin-like domain; Region: Ferritin; pfam00210 716544002118 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 716544002119 dimerization interface [polypeptide binding]; other site 716544002120 DPS ferroxidase diiron center [ion binding]; other site 716544002121 ion pore; other site 716544002122 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; cl12011 716544002123 exosortase 1 system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 716544002124 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 716544002125 active site 716544002126 dimer interface [polypeptide binding]; other site 716544002127 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 716544002128 Ligand Binding Site [chemical binding]; other site 716544002129 Molecular Tunnel; other site 716544002130 Protein of unknown function (DUF796); Region: DUF796; cl01226 716544002131 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 716544002132 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 716544002133 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 716544002134 RHS Repeat; Region: RHS_repeat; cl11982 716544002135 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 716544002136 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 716544002137 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 716544002138 catalytic core [active] 716544002139 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 716544002140 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 716544002141 NADP binding site [chemical binding]; other site 716544002142 active site 716544002143 steroid binding site; other site 716544002144 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 716544002145 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 716544002146 Protein phosphatase 2C; Region: PP2C; pfam00481 716544002147 active site 716544002148 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 716544002149 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 716544002150 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 716544002151 catalytic residue [active] 716544002152 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 716544002153 Domain of unknown function DUF21; Region: DUF21; pfam01595 716544002154 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 716544002155 Transporter associated domain; Region: CorC_HlyC; cl08393 716544002156 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 716544002157 Domain of unknown function DUF21; Region: DUF21; pfam01595 716544002158 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 716544002159 Transporter associated domain; Region: CorC_HlyC; cl08393 716544002160 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 716544002161 nudix motif; other site 716544002162 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 716544002163 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 716544002164 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 716544002165 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 716544002166 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 716544002167 catalytic residues [active] 716544002168 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 716544002169 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 716544002170 binding surface 716544002171 TPR motif; other site 716544002172 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 716544002173 TPR motif; other site 716544002174 binding surface 716544002175 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 716544002176 MgtE intracellular N domain; Region: MgtE_N; cl15244 716544002177 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 716544002178 Divalent cation transporter; Region: MgtE; cl00786 716544002179 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 716544002180 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 716544002181 S-adenosylmethionine binding site [chemical binding]; other site 716544002182 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 716544002183 binding surface 716544002184 TPR motif; other site 716544002185 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 716544002186 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 716544002187 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 716544002188 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 716544002189 Walker A motif; other site 716544002190 ATP binding site [chemical binding]; other site 716544002191 Walker B motif; other site 716544002192 arginine finger; other site 716544002193 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 716544002194 Stage II sporulation protein; Region: SpoIID; pfam08486 716544002195 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 716544002196 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 716544002197 Tir chaperone protein (CesT); Region: CesT; cl08444 716544002198 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 716544002199 dimer interface [polypeptide binding]; other site 716544002200 ssDNA binding site [nucleotide binding]; other site 716544002201 tetramer (dimer of dimers) interface [polypeptide binding]; other site 716544002202 multifunctional aminopeptidase A; Provisional; Region: PRK00913 716544002203 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 716544002204 interface (dimer of trimers) [polypeptide binding]; other site 716544002205 Substrate-binding/catalytic site; other site 716544002206 Zn-binding sites [ion binding]; other site 716544002207 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 716544002208 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544002209 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 716544002210 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 716544002211 Protein phosphatase 2C; Region: PP2C; pfam00481 716544002212 active site 716544002213 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 716544002214 NeuB family; Region: NeuB; cl00496 716544002215 SAF domain; Region: SAF; cl00555 716544002216 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 716544002217 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 716544002218 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 716544002219 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544002220 NAD(P) binding site [chemical binding]; other site 716544002221 active site 716544002222 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 716544002223 DNA polymerase III, delta subunit; Region: holA; TIGR01128 716544002224 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 716544002225 coproporphyrinogen III oxidase; Provisional; Region: PRK06294 716544002226 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 716544002227 FeS/SAM binding site; other site 716544002228 HemN C-terminal region; Region: HemN_C; pfam06969 716544002229 Response regulator receiver domain; Region: Response_reg; pfam00072 716544002230 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 716544002231 active site 716544002232 phosphorylation site [posttranslational modification] 716544002233 intermolecular recognition site; other site 716544002234 dimerization interface [polypeptide binding]; other site 716544002235 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 716544002236 catalytic residues [active] 716544002237 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 716544002238 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 716544002239 Mechanosensitive ion channel; Region: MS_channel; pfam00924 716544002240 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 716544002241 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544002242 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 716544002243 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 716544002244 Active site serine [active] 716544002245 ResB-like family; Region: ResB; pfam05140 716544002246 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 716544002247 ligand binding site; other site 716544002248 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 716544002249 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 716544002250 TPP-binding site [chemical binding]; other site 716544002251 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 716544002252 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 716544002253 E3 interaction surface; other site 716544002254 lipoyl attachment site [posttranslational modification]; other site 716544002255 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 716544002256 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 716544002257 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544002258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544002259 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 716544002260 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 716544002261 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 716544002262 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 716544002263 catalytic loop [active] 716544002264 iron binding site [ion binding]; other site 716544002265 Guanine nucleotide exchange factor for Ras-like small GTPases. Small GTP-binding proteins of the Ras superfamily function as molecular switches in fundamental events such as signal transduction, cytoskeleton dynamics and intracellular trafficking; Region: RasGEF; cl02485 716544002266 Ras interaction site [polypeptide binding]; other site 716544002267 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 716544002268 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 716544002269 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 716544002270 oligomerization interface [polypeptide binding]; other site 716544002271 active site 716544002272 NAD+ binding site [chemical binding]; other site 716544002273 chromosomal replication initiation protein; Provisional; Region: PRK12422 716544002274 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 716544002275 Walker A motif; other site 716544002276 ATP binding site [chemical binding]; other site 716544002277 Walker B motif; other site 716544002278 arginine finger; other site 716544002279 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 716544002280 DnaA box-binding interface [nucleotide binding]; other site 716544002281 putative inner membrane protein translocase component YidC; Provisional; Region: PRK01001 716544002282 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 716544002283 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 716544002284 Catalytic domain of Protein Kinases; Region: PKc; cd00180 716544002285 active site 716544002286 ATP binding site [chemical binding]; other site 716544002287 substrate binding site [chemical binding]; other site 716544002288 activation loop (A-loop); other site 716544002289 Uncharacterized conserved protein [Function unknown]; Region: COG1262 716544002290 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 716544002291 Low molecular weight phosphatase family; Region: LMWPc; cd00115 716544002292 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 716544002293 active site 716544002294 Protein of unknown function (DUF721); Region: DUF721; cl02324 716544002295 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 716544002296 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 716544002297 ATP binding site [chemical binding]; other site 716544002298 Mg2+ binding site [ion binding]; other site 716544002299 G-X-G motif; other site 716544002300 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 716544002301 anchoring element; other site 716544002302 dimer interface [polypeptide binding]; other site 716544002303 ATP binding site [chemical binding]; other site 716544002304 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 716544002305 active site 716544002306 putative metal-binding site [ion binding]; other site 716544002307 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 716544002308 DNA gyrase subunit A; Validated; Region: PRK05560 716544002309 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 in DNA...; Region: TOP4c; cd00187 716544002310 CAP-like domain; other site 716544002311 active site 716544002312 primary dimer interface [polypeptide binding]; other site 716544002313 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 716544002314 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 716544002315 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 716544002316 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 716544002317 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 716544002318 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 716544002319 thymidylate kinase; Validated; Region: tmk; PRK00698 716544002320 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 716544002321 TMP-binding site; other site 716544002322 ATP-binding site [chemical binding]; other site 716544002323 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 716544002324 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544002325 DNA polymerase III subunit delta'; Validated; Region: PRK07940 716544002326 chorismate binding enzyme; Region: Chorismate_bind; cl10555 716544002327 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 716544002328 dimer interface [polypeptide binding]; other site 716544002329 tetramer interface [polypeptide binding]; other site 716544002330 PYR/PP interface [polypeptide binding]; other site 716544002331 TPP binding site [chemical binding]; other site 716544002332 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544002333 RHS Repeat; Region: RHS_repeat; cl11982 716544002334 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 716544002335 RHS Repeat; Region: RHS_repeat; cl11982 716544002336 RHS Repeat; Region: RHS_repeat; cl11982 716544002337 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 716544002338 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 716544002339 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 716544002340 TPP-binding site [chemical binding]; other site 716544002341 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 716544002342 dihydroxynaphthoic acid synthetase; Validated; Region: PRK07396 716544002343 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 716544002344 substrate binding site [chemical binding]; other site 716544002345 oxyanion hole (OAH) forming residues; other site 716544002346 trimer interface [polypeptide binding]; other site 716544002347 UbiA prenyltransferase family; Region: UbiA; cl00337 716544002348 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; cl09108 716544002349 metal binding site [ion binding]; metal-binding site 716544002350 substrate binding pocket [chemical binding]; other site 716544002351 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 716544002352 acyl-CoA synthetase; Validated; Region: PRK08316 716544002353 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 716544002354 active site 716544002355 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 716544002356 binding surface 716544002357 TPR motif; other site 716544002358 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 716544002359 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 716544002360 S-adenosylmethionine binding site [chemical binding]; other site 716544002361 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 716544002362 conserved hypothetical protein YmdA/YtgF; Region: YmdA_YtgF; TIGR03319 716544002363 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 716544002364 Domain of unknown function DUF21; Region: DUF21; pfam01595 716544002365 FOG: CBS domain [General function prediction only]; Region: COG0517 716544002366 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 716544002367 Transporter associated domain; Region: CorC_HlyC; cl08393 716544002368 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 716544002369 Competence protein CoiA-like family; Region: CoiA; cl11541 716544002370 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 716544002371 Protein of unknown function (DUF502); Region: DUF502; cl01107 716544002372 Protein of unknown function (DUF502); Region: DUF502; cl01107 716544002373 ribonuclease R; Region: RNase_R; TIGR02063 716544002374 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 716544002375 RNB domain; Region: RNB; pfam00773 716544002376 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 716544002377 RNA binding site [nucleotide binding]; other site 716544002378 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 716544002379 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 716544002380 HIGH motif; other site 716544002381 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 716544002382 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 716544002383 active site 716544002384 KMSKS motif; other site 716544002385 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 716544002386 tRNA binding surface [nucleotide binding]; other site 716544002387 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 716544002388 Protein of unknown function (DUF692); Region: DUF692; cl01263 716544002389 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 716544002390 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 716544002391 Tetramer interface [polypeptide binding]; other site 716544002392 active site 716544002393 FMN-binding site [chemical binding]; other site 716544002394 Arginase family; Region: Arginase; cl00306 716544002395 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 716544002396 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 716544002397 active site 716544002398 urocanate hydratase; Provisional; Region: PRK05414 716544002399 urocanate hydratase; Region: hutU; TIGR01228 716544002400 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 716544002401 active sites [active] 716544002402 tetramer interface [polypeptide binding]; other site 716544002403 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 716544002404 substrate binding site [chemical binding]; other site 716544002405 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 716544002406 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 716544002407 catalytic motif [active] 716544002408 Zn binding site [ion binding]; other site 716544002409 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 716544002410 acetyl-CoA synthetase; Provisional; Region: PRK00174 716544002411 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 716544002412 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 716544002413 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 716544002414 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 716544002415 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 716544002416 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 716544002417 substrate binding site [chemical binding]; other site 716544002418 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 716544002419 S-adenosylmethionine binding site [chemical binding]; other site 716544002420 Transmembrane proteins 14C; Region: Tmemb_14; cl02346 716544002421 Dienelactone hydrolase family; Region: DLH; pfam01738 716544002422 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 716544002423 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 716544002424 Mechanosensitive ion channel; Region: MS_channel; pfam00924 716544002425 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 716544002426 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 716544002427 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 716544002428 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 716544002429 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 716544002430 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 716544002431 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; cl12031 716544002432 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 716544002433 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; cl12031 716544002434 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 716544002435 active site 716544002436 ADP/pyrophosphate binding site [chemical binding]; other site 716544002437 dimerization interface [polypeptide binding]; other site 716544002438 allosteric effector site; other site 716544002439 fructose-1,6-bisphosphate binding site; other site 716544002440 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 716544002441 homopentamer interface [polypeptide binding]; other site 716544002442 active site 716544002443 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 716544002444 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 716544002445 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 716544002446 dimerization interface [polypeptide binding]; other site 716544002447 active site 716544002448 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 716544002449 Predicted transcriptional regulator [Transcription]; Region: COG1959 716544002450 BRO family, N-terminal domain; Region: Bro-N; cl10591 716544002451 Competence protein CoiA-like family; Region: CoiA; cl11541 716544002452 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 716544002453 Transposase [DNA replication, recombination, and repair]; Region: COG5433 716544002454 Transposase [DNA replication, recombination, and repair]; Region: COG5433 716544002455 potential frameshift: common BLAST hit: gi|85859971|ref|YP_462173.1| transposase 716544002456 Transposase, Mutator family; Region: Transposase_mut; pfam00872 716544002457 Transposase, Mutator family; Region: Transposase_mut; pfam00872 716544002458 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 716544002459 YcfA-like protein; Region: YcfA; cl00752 716544002460 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 716544002461 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 716544002462 Walker A/P-loop; other site 716544002463 ATP binding site [chemical binding]; other site 716544002464 Q-loop/lid; other site 716544002465 ABC transporter signature motif; other site 716544002466 Walker B; other site 716544002467 D-loop; other site 716544002468 H-loop/switch region; other site 716544002469 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 716544002470 dimer interface [polypeptide binding]; other site 716544002471 conserved gate region; other site 716544002472 putative PBP binding loops; other site 716544002473 ABC-ATPase subunit interface; other site 716544002474 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 716544002475 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 716544002476 LemA family; Region: LemA; cl00742 716544002477 Peptidase family M48; Region: Peptidase_M48; cl12018 716544002478 DoxX; Region: DoxX; cl00976 716544002479 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 716544002480 GIY-YIG motif/motif A; other site 716544002481 active site 716544002482 catalytic site [active] 716544002483 Cation efflux family; Region: Cation_efflux; cl00316 716544002484 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 716544002485 Ligand binding site; other site 716544002486 oligomer interface; other site 716544002487 CTP synthetase; Validated; Region: pyrG; PRK05380 716544002488 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 716544002489 Catalytic site [active] 716544002490 active site 716544002491 UTP binding site [chemical binding]; other site 716544002492 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 716544002493 active site 716544002494 putative oxyanion hole; other site 716544002495 catalytic triad [active] 716544002496 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 includes...; Region: RuvC_resolvase; cl00243 716544002497 EVE domain; Region: EVE; cl00728 716544002498 TIGR03442 family protein; Region: TIGR03442 716544002499 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 716544002500 putative active site [active] 716544002501 putative dimer interface [polypeptide binding]; other site 716544002502 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 716544002503 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 716544002504 Transposase, Mutator family; Region: Transposase_mut; pfam00872 716544002505 MULE transposase domain; Region: MULE; pfam10551 716544002506 'initiating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are characterized by the...; Region: init_cond_enzymes; cd00827 716544002507 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 716544002508 dimer interface [polypeptide binding]; other site 716544002509 active site 716544002510 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 716544002511 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 716544002512 homotetramer interface [polypeptide binding]; other site 716544002513 FMN binding site [chemical binding]; other site 716544002514 homodimer contacts [polypeptide binding]; other site 716544002515 putative active site [active] 716544002516 putative substrate binding site [chemical binding]; other site 716544002517 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 716544002518 helix swapped region; other site 716544002519 homodimer interface [polypeptide binding]; other site 716544002520 substrate binding pocket [chemical binding]; other site 716544002521 catalytic residues [active] 716544002522 NADH/NADPH cofactor binding site [chemical binding]; other site 716544002523 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 716544002524 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 716544002525 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 716544002526 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 716544002527 mevalonate kinase; Region: mevalon_kin; TIGR00549 716544002528 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 716544002529 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 716544002530 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 716544002531 ATP synthase A chain; Region: ATP-synt_A; cl00413 716544002532 ATP synthase subunit C; Region: ATP-synt_C; cl00466 716544002533 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 716544002534 Plant ATP synthase F0; Region: YMF19; cl07975 716544002535 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl15360 716544002536 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 716544002537 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 716544002538 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 716544002539 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 716544002540 beta subunit interaction interface [polypeptide binding]; other site 716544002541 Walker A motif; other site 716544002542 ATP binding site [chemical binding]; other site 716544002543 Walker B motif; other site 716544002544 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 716544002545 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 716544002546 ATP synthase; Region: ATP-synt; cl00365 716544002547 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 716544002548 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 716544002549 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 716544002550 alpha subunit interaction interface [polypeptide binding]; other site 716544002551 Walker A motif; other site 716544002552 ATP binding site [chemical binding]; other site 716544002553 Walker B motif; other site 716544002554 inhibitor binding site; inhibition site 716544002555 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 716544002556 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 716544002557 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 716544002558 Guanine nucleotide exchange factor for Ras-like small GTPases. Small GTP-binding proteins of the Ras superfamily function as molecular switches in fundamental events such as signal transduction, cytoskeleton dynamics and intracellular trafficking; Region: RasGEF; cl02485 716544002559 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 716544002560 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 716544002561 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 716544002562 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; cl01359 716544002563 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 716544002564 putative active site [active] 716544002565 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 716544002566 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 716544002567 RNA binding surface [nucleotide binding]; other site 716544002568 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 716544002569 active site 716544002570 CHASE domain; Region: CHASE; cl01369 716544002571 PAS fold; Region: PAS; pfam00989 716544002572 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 716544002573 putative active site [active] 716544002574 heme pocket [chemical binding]; other site 716544002575 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 716544002576 PAS fold; Region: PAS_4; pfam08448 716544002577 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 716544002578 dimer interface [polypeptide binding]; other site 716544002579 phosphorylation site [posttranslational modification] 716544002580 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 716544002581 ATP binding site [chemical binding]; other site 716544002582 Mg2+ binding site [ion binding]; other site 716544002583 G-X-G motif; other site 716544002584 Response regulator receiver domain; Region: Response_reg; pfam00072 716544002585 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 716544002586 active site 716544002587 phosphorylation site [posttranslational modification] 716544002588 intermolecular recognition site; other site 716544002589 dimerization interface [polypeptide binding]; other site 716544002590 UGMP family protein; Validated; Region: PRK09604 716544002591 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 716544002592 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 716544002593 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 716544002594 FtsX-like permease family; Region: FtsX; pfam02687 716544002595 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 716544002596 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 716544002597 Walker A/P-loop; other site 716544002598 ATP binding site [chemical binding]; other site 716544002599 Q-loop/lid; other site 716544002600 ABC transporter signature motif; other site 716544002601 Walker B; other site 716544002602 D-loop; other site 716544002603 H-loop/switch region; other site 716544002604 Uncharacterized conserved protein [Function unknown]; Region: COG1565 716544002605 Vitamin K epoxide reductase family; Region: VKOR; cl01729 716544002606 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 716544002607 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 716544002608 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 716544002609 dimer interface [polypeptide binding]; other site 716544002610 pyridoxal 5'-phosphate binding site [chemical binding]; other site 716544002611 catalytic residue [active] 716544002612 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 716544002613 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 716544002614 homodimer interface [polypeptide binding]; other site 716544002615 substrate-cofactor binding pocket; other site 716544002616 pyridoxal 5'-phosphate binding site [chemical binding]; other site 716544002617 catalytic residue [active] 716544002618 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 716544002619 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 716544002620 active site 716544002621 homotetramer interface [polypeptide binding]; other site 716544002622 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 716544002623 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 716544002624 substrate-cofactor binding pocket; other site 716544002625 pyridoxal 5'-phosphate binding site [chemical binding]; other site 716544002626 catalytic residue [active] 716544002627 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 716544002628 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 716544002629 NAD(P) binding site [chemical binding]; other site 716544002630 ACT domain-containing protein [General function prediction only]; Region: COG4747 716544002631 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 716544002632 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 716544002633 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 716544002634 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 716544002635 metal-binding site [ion binding] 716544002636 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 716544002637 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 716544002638 F-box domain; Region: F-box; cl02535 716544002639 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 716544002640 structural tetrad; other site 716544002641 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 716544002642 active site 716544002643 catalytic residues [active] 716544002644 metal binding site [ion binding]; metal-binding site 716544002645 Preprotein translocase SecG subunit; Region: SecG; cl09123 716544002646 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 716544002647 substrate binding site [chemical binding]; other site 716544002648 dimer interface [polypeptide binding]; other site 716544002649 catalytic triad [active] 716544002650 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 716544002651 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 716544002652 generic binding surface II; other site 716544002653 generic binding surface I; other site 716544002654 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 716544002655 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 716544002656 Domain of unknown function DUF11; Region: DUF11; cl15273 716544002657 Predicted membrane protein [Function unknown]; Region: COG1470 716544002658 Domain of unknown function DUF11; Region: DUF11; cl15273 716544002659 Domain of unknown function DUF11; Region: DUF11; cl15273 716544002660 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 716544002661 S-adenosylmethionine binding site [chemical binding]; other site 716544002662 Maf-like protein; Region: Maf; pfam02545 716544002663 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 716544002664 active site 716544002665 dimer interface [polypeptide binding]; other site 716544002666 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 716544002667 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 716544002668 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 716544002669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544002670 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 716544002671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544002672 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 716544002673 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 716544002674 substrate binding pocket [chemical binding]; other site 716544002675 chain length determination region; other site 716544002676 substrate-Mg2+ binding site; other site 716544002677 catalytic residues [active] 716544002678 aspartate-rich region 1; other site 716544002679 active site lid residues [active] 716544002680 aspartate-rich region 2; other site 716544002681 Bacterial sugar transferase; Region: Bac_transf; cl00939 716544002682 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 716544002683 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 716544002684 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 716544002685 homodimer interface [polypeptide binding]; other site 716544002686 NADP binding site [chemical binding]; other site 716544002687 substrate binding site [chemical binding]; other site 716544002688 ApbE family; Region: ApbE; cl00643 716544002689 leucyl-tRNA synthetase; Reviewed; Region: leuS; PRK12300 716544002690 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 716544002691 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 716544002692 binding surface 716544002693 TPR motif; other site 716544002694 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 716544002695 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544002696 Walker A/P-loop; other site 716544002697 ATP binding site [chemical binding]; other site 716544002698 Q-loop/lid; other site 716544002699 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544002700 ABC transporter signature motif; other site 716544002701 Walker B; other site 716544002702 D-loop; other site 716544002703 H-loop/switch region; other site 716544002704 DNA polymerase III subunit beta; Validated; Region: PRK05643 716544002705 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 716544002706 putative DNA binding surface [nucleotide binding]; other site 716544002707 dimer interface [polypeptide binding]; other site 716544002708 beta-clamp/clamp loader binding surface; other site 716544002709 beta-clamp/translesion DNA polymerase binding surface; other site 716544002710 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 716544002711 SmpB-tmRNA interface; other site 716544002712 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 716544002713 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 716544002714 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 716544002715 putative active site [active] 716544002716 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 716544002717 Phosphopantetheine attachment site; Region: PP-binding; cl09936 716544002718 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 716544002719 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 716544002720 NAD(P) binding site [chemical binding]; other site 716544002721 homotetramer interface [polypeptide binding]; other site 716544002722 homodimer interface [polypeptide binding]; other site 716544002723 active site 716544002724 Acyl transferase domain; Region: Acyl_transf_1; cl08282 716544002725 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 716544002726 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 716544002727 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 716544002728 dimer interface [polypeptide binding]; other site 716544002729 active site 716544002730 CoA binding pocket [chemical binding]; other site 716544002731 recombination protein RecR; Reviewed; Region: recR; PRK00076 716544002732 RecR protein; Region: RecR; pfam02132 716544002733 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 716544002734 putative active site [active] 716544002735 putative metal-binding site [ion binding]; other site 716544002736 tetramer interface [polypeptide binding]; other site 716544002737 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 716544002738 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 716544002739 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 716544002740 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 716544002741 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 716544002742 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 716544002743 Surface antigen; Region: Bac_surface_Ag; cl03097 716544002744 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 716544002745 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 716544002746 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 716544002747 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 716544002748 trimer interface [polypeptide binding]; other site 716544002749 active site 716544002750 UDP-GlcNAc binding site [chemical binding]; other site 716544002751 lipid binding site [chemical binding]; lipid-binding site 716544002752 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 716544002753 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 716544002754 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; cl15358 716544002755 Integrase core domain; Region: rve; cl01316 716544002756 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 716544002757 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 716544002758 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 716544002759 E3 interaction surface; other site 716544002760 lipoyl attachment site [posttranslational modification]; other site 716544002761 e3 binding domain; Region: E3_binding; pfam02817 716544002762 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 716544002763 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 716544002764 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 716544002765 alpha subunit interface [polypeptide binding]; other site 716544002766 TPP binding site [chemical binding]; other site 716544002767 heterodimer interface [polypeptide binding]; other site 716544002768 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 716544002769 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 716544002770 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 716544002771 tetramer interface [polypeptide binding]; other site 716544002772 TPP-binding site [chemical binding]; other site 716544002773 heterodimer interface [polypeptide binding]; other site 716544002774 phosphorylation loop region [posttranslational modification] 716544002775 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 716544002776 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 716544002777 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 716544002778 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 716544002779 PemK-like protein; Region: PemK; cl00995 716544002780 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 716544002781 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 716544002782 catalytic residue [active] 716544002783 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 716544002784 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 716544002785 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 716544002786 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 716544002787 active site residues [active] 716544002788 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 716544002789 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 716544002790 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 716544002791 inhibitor-cofactor binding pocket; inhibition site 716544002792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 716544002793 catalytic residue [active] 716544002794 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 716544002795 Surface antigen; Region: Bac_surface_Ag; cl03097 716544002796 Family of unknown function (DUF490); Region: DUF490; pfam04357 716544002797 exosortase 1 system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 716544002798 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 716544002799 dimer interface [polypeptide binding]; other site 716544002800 active site 716544002801 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 716544002802 Ligand Binding Site [chemical binding]; other site 716544002803 Molecular Tunnel; other site 716544002804 Domain of unknown function DUF140; Region: DUF140; cl00510 716544002805 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 716544002806 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 716544002807 Walker A/P-loop; other site 716544002808 ATP binding site [chemical binding]; other site 716544002809 Q-loop/lid; other site 716544002810 ABC transporter signature motif; other site 716544002811 Walker B; other site 716544002812 D-loop; other site 716544002813 H-loop/switch region; other site 716544002814 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 716544002815 mce related protein; Region: MCE; cl15431 716544002816 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 716544002817 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 716544002818 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 716544002819 23S rRNA interface [nucleotide binding]; other site 716544002820 L3 interface [polypeptide binding]; other site 716544002821 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 716544002822 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 716544002823 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 716544002824 FeS/SAM binding site; other site 716544002825 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 716544002826 E-class dimer interface [polypeptide binding]; other site 716544002827 P-class dimer interface [polypeptide binding]; other site 716544002828 active site 716544002829 Cu2+ binding site [ion binding]; other site 716544002830 Zn2+ binding site [ion binding]; other site 716544002831 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 716544002832 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 716544002833 nucleotide binding pocket [chemical binding]; other site 716544002834 K-X-D-G motif; other site 716544002835 catalytic site [active] 716544002836 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 716544002837 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 716544002838 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 716544002839 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 716544002840 Dimer interface [polypeptide binding]; other site 716544002841 BRCT sequence motif; other site 716544002842 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 716544002843 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 716544002844 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 716544002845 FeS/SAM binding site; other site 716544002846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544002847 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 716544002848 hypothetical protein; Reviewed; Region: PRK00024 716544002849 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 716544002850 helix-hairpin-helix signature motif; other site 716544002851 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 716544002852 MPN+ (JAMM) motif; other site 716544002853 Zinc-binding site [ion binding]; other site 716544002854 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 716544002855 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 716544002856 G1 box; other site 716544002857 GTP/Mg2+ binding site [chemical binding]; other site 716544002858 Switch I region; other site 716544002859 G2 box; other site 716544002860 G3 box; other site 716544002861 Switch II region; other site 716544002862 G4 box; other site 716544002863 G5 box; other site 716544002864 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 716544002865 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 716544002866 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544002867 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544002868 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 716544002869 Citrate synthase; Region: Citrate_synt; pfam00285 716544002870 oxalacetate binding site [chemical binding]; other site 716544002871 citrylCoA binding site [chemical binding]; other site 716544002872 coenzyme A binding site [chemical binding]; other site 716544002873 catalytic triad [active] 716544002874 malate dehydrogenase; Provisional; Region: PRK05442 716544002875 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 716544002876 NAD(P) binding site [chemical binding]; other site 716544002877 dimer interface [polypeptide binding]; other site 716544002878 malate binding site [chemical binding]; other site 716544002879 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 716544002880 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 716544002881 FeS/SAM binding site; other site 716544002882 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 716544002883 Ligand Binding Site [chemical binding]; other site 716544002884 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 716544002885 adenylate kinase; Reviewed; Region: adk; PRK00279 716544002886 AMP-binding site [chemical binding]; other site 716544002887 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 716544002888 Beta-Casp domain; Region: Beta-Casp; cl12567 716544002889 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 716544002890 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; cl02529 716544002891 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 716544002892 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 716544002893 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 716544002894 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 716544002895 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 716544002896 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; cd00625 716544002897 transmembrane helices; other site 716544002898 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 716544002899 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 716544002900 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 716544002901 Amino acid permease; Region: AA_permease; cl00524 716544002902 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 716544002903 Protein required for attachment to host cells; Region: Host_attach; cl02398 716544002904 Sel1 repeat; Region: Sel1; cl02723 716544002905 Sel1 repeat; Region: Sel1; cl02723 716544002906 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 716544002907 Sel1 repeat; Region: Sel1; cl02723 716544002908 Sel1 repeat; Region: Sel1; cl02723 716544002909 Sel1 repeat; Region: Sel1; cl02723 716544002910 Sel1 repeat; Region: Sel1; cl02723 716544002911 Sel1 repeat; Region: Sel1; cl02723 716544002912 Sel1 repeat; Region: Sel1; cl02723 716544002913 Sel1 repeat; Region: Sel1; cl02723 716544002914 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 716544002915 Sel1 repeat; Region: Sel1; cl02723 716544002916 Sel1 repeat; Region: Sel1; cl02723 716544002917 Sel1 repeat; Region: Sel1; cl02723 716544002918 Sel1 repeat; Region: Sel1; cl02723 716544002919 Sel1 repeat; Region: Sel1; cl02723 716544002920 Sel1 repeat; Region: Sel1; cl02723 716544002921 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 716544002922 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 716544002923 active site 716544002924 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 716544002925 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 716544002926 substrate binding site [chemical binding]; other site 716544002927 oxyanion hole (OAH) forming residues; other site 716544002928 trimer interface [polypeptide binding]; other site 716544002929 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; cl12011 716544002930 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 716544002931 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 716544002932 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 716544002933 dimer interface [polypeptide binding]; other site 716544002934 active site 716544002935 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 716544002936 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 716544002937 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 716544002938 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 716544002939 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; cl15358 716544002940 Integrase core domain; Region: rve; cl01316 716544002941 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 716544002942 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 716544002943 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 716544002944 active site 716544002945 glycyl-tRNA synthetase; Provisional; Region: PRK14908 716544002946 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 716544002947 dimer interface [polypeptide binding]; other site 716544002948 motif 1; other site 716544002949 active site 716544002950 motif 2; other site 716544002951 motif 3; other site 716544002952 pyruvate kinase; Provisional; Region: PRK06354 716544002953 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; cl09155 716544002954 domain interfaces; other site 716544002955 active site 716544002956 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 716544002957 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; cl00207 716544002958 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 716544002959 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 716544002960 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 716544002961 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 716544002962 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 716544002963 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 716544002964 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 716544002965 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 716544002966 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 716544002967 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 716544002968 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 716544002969 glycerol kinase; Provisional; Region: glpK; PRK00047 716544002970 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 716544002971 N- and C-terminal domain interface [polypeptide binding]; other site 716544002972 active site 716544002973 MgATP binding site [chemical binding]; other site 716544002974 catalytic site [active] 716544002975 metal binding site [ion binding]; metal-binding site 716544002976 glycerol binding site [chemical binding]; other site 716544002977 homotetramer interface [polypeptide binding]; other site 716544002978 homodimer interface [polypeptide binding]; other site 716544002979 FBP binding site [chemical binding]; other site 716544002980 protein IIAGlc interface [polypeptide binding]; other site 716544002981 Protein of unknown function (DUF2843); Region: DUF2843; pfam11004 716544002982 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 716544002983 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 716544002984 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 716544002985 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 716544002986 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 716544002987 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 716544002988 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 716544002989 hinge; other site 716544002990 active site 716544002991 shikimate kinase; Reviewed; Region: aroK; PRK00131 716544002992 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 716544002993 ADP binding site [chemical binding]; other site 716544002994 magnesium binding site [ion binding]; other site 716544002995 putative shikimate binding site; other site 716544002996 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 716544002997 active site 716544002998 dimer interface [polypeptide binding]; other site 716544002999 metal binding site [ion binding]; metal-binding site 716544003000 bifunctional 3-dehydroquinate dehydratase/shikimate dehydrogenase; Region: PLN02520 716544003001 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 716544003002 active site 716544003003 catalytic residue [active] 716544003004 dimer interface [polypeptide binding]; other site 716544003005 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 716544003006 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 716544003007 shikimate binding site; other site 716544003008 NAD(P) binding site [chemical binding]; other site 716544003009 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 716544003010 serine/threonine-protein kinase; Reviewed; Region: pknD; PRK13184 716544003011 Catalytic domain of Protein Kinases; Region: PKc; cd00180 716544003012 active site 716544003013 ATP binding site [chemical binding]; other site 716544003014 substrate binding site [chemical binding]; other site 716544003015 activation loop (A-loop); other site 716544003016 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 716544003017 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 716544003018 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 716544003019 active site 716544003020 HIGH motif; other site 716544003021 nucleotide binding site [chemical binding]; other site 716544003022 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 716544003023 active site 716544003024 KMSKS motif; other site 716544003025 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 716544003026 tRNA binding surface [nucleotide binding]; other site 716544003027 anticodon binding site; other site 716544003028 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 716544003029 Legionella pneumophila major outer membrane protein precursor; Region: Legionella_OMP; pfam05150 716544003030 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 716544003031 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 716544003032 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 716544003033 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 716544003034 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 716544003035 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 716544003036 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 716544003037 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 716544003038 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 716544003039 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 716544003040 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 716544003041 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 716544003042 NeuB family; Region: NeuB; cl00496 716544003043 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 716544003044 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 716544003045 Ligand Binding Site [chemical binding]; other site 716544003046 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 716544003047 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 716544003048 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544003049 Walker A/P-loop; other site 716544003050 ATP binding site [chemical binding]; other site 716544003051 Q-loop/lid; other site 716544003052 ABC transporter signature motif; other site 716544003053 Walker B; other site 716544003054 D-loop; other site 716544003055 H-loop/switch region; other site 716544003056 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 716544003057 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 716544003058 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 716544003059 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 716544003060 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 716544003061 IHF - DNA interface [nucleotide binding]; other site 716544003062 IHF dimer interface [polypeptide binding]; other site 716544003063 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 716544003064 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 716544003065 active site 716544003066 HIGH motif; other site 716544003067 dimer interface [polypeptide binding]; other site 716544003068 KMSKS motif; other site 716544003069 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 716544003070 RNA binding surface [nucleotide binding]; other site 716544003071 Uncharacterized conserved protein [Function unknown]; Region: COG0327 716544003072 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 716544003073 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 716544003074 tetramer (dimer of dimers) interface [polypeptide binding]; other site 716544003075 active site 716544003076 dimer interface [polypeptide binding]; other site 716544003077 Uncharacterised ACR, COG1259; Region: DUF151; cl00553 716544003078 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 716544003079 dimerization domain swap beta strand [polypeptide binding]; other site 716544003080 regulatory protein interface [polypeptide binding]; other site 716544003081 active site 716544003082 regulatory phosphorylation site [posttranslational modification]; other site 716544003083 oligoendopeptidase F; Region: pepF; TIGR00181 716544003084 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 716544003085 active site 716544003086 Zn binding site [ion binding]; other site 716544003087 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 716544003088 oligomerisation interface [polypeptide binding]; other site 716544003089 mobile loop; other site 716544003090 roof hairpin; other site 716544003091 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 716544003092 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 716544003093 ring oligomerisation interface [polypeptide binding]; other site 716544003094 ATP/Mg binding site [chemical binding]; other site 716544003095 stacking interactions; other site 716544003096 hinge regions; other site 716544003097 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 716544003098 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 716544003099 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; cl10029 716544003100 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 716544003101 nucleotide binding site/active site [active] 716544003102 HIT family signature motif; other site 716544003103 catalytic residue [active] 716544003104 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 716544003105 MutS domain I; Region: MutS_I; pfam01624 716544003106 MutS domain II; Region: MutS_II; pfam05188 716544003107 MutS family domain IV; Region: MutS_IV; pfam05190 716544003108 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 716544003109 Walker A/P-loop; other site 716544003110 ATP binding site [chemical binding]; other site 716544003111 Q-loop/lid; other site 716544003112 ABC transporter signature motif; other site 716544003113 Walker B; other site 716544003114 D-loop; other site 716544003115 H-loop/switch region; other site 716544003116 primosome assembly protein PriA; Validated; Region: PRK05580 716544003117 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 716544003118 ATP binding site [chemical binding]; other site 716544003119 putative Mg++ binding site [ion binding]; other site 716544003120 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 716544003121 ATP-binding site [chemical binding]; other site 716544003122 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 716544003123 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 716544003124 dimer interface [polypeptide binding]; other site 716544003125 putative anticodon binding site; other site 716544003126 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 716544003127 motif 1; other site 716544003128 active site 716544003129 motif 2; other site 716544003130 motif 3; other site 716544003131 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 716544003132 RHS Repeat; Region: RHS_repeat; cl11982 716544003133 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 716544003134 RHS Repeat; Region: RHS_repeat; cl11982 716544003135 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 716544003136 Protein of unknown function (DUF687); Region: DUF687; pfam05095 716544003137 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 716544003138 OPT oligopeptide transporter protein; Region: OPT; cl14607 716544003139 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 716544003140 4Fe-4S binding domain; Region: Fer4; cl02805 716544003141 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 716544003142 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 716544003143 active site 716544003144 HIGH motif; other site 716544003145 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 716544003146 KMSKS motif; other site 716544003147 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 716544003148 tRNA binding surface [nucleotide binding]; other site 716544003149 anticodon binding site; other site 716544003150 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 716544003151 putative acyl-acceptor binding pocket; other site 716544003152 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 716544003153 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 716544003154 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Ap4A hydrolases are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_human_like; cd03428 716544003155 active site 716544003156 Ap4A binding cleft/pocket [chemical binding]; other site 716544003157 P4 phosphate binding site; other site 716544003158 nudix motif; other site 716544003159 putative P2/P3 phosphate binding site [ion binding]; other site 716544003160 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 716544003161 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 716544003162 dimer interface [polypeptide binding]; other site 716544003163 active site 716544003164 Domain of unknown function DUF143; Region: DUF143; cl00519 716544003165 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 716544003166 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 716544003167 active site 716544003168 (T/H)XGH motif; other site 716544003169 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 716544003170 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 716544003171 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 716544003172 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 716544003173 motif II; other site 716544003174 IPP transferase; Region: IPPT; cl00403 716544003175 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 716544003176 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 716544003177 DHH family; Region: DHH; pfam01368 716544003178 DHHA1 domain; Region: DHHA1; pfam02272 716544003179 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 716544003180 dimer interface [polypeptide binding]; other site 716544003181 ssDNA binding site [nucleotide binding]; other site 716544003182 tetramer (dimer of dimers) interface [polypeptide binding]; other site 716544003183 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 716544003184 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 716544003185 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 716544003186 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 716544003187 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 716544003188 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 716544003189 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 716544003190 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 716544003191 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 716544003192 active site 716544003193 homodimer interface [polypeptide binding]; other site 716544003194 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 716544003195 invasion associated secreted endopeptidase; Provisional; Region: PRK13914 716544003196 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 716544003197 putative peptidoglycan binding site; other site 716544003198 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 716544003199 putative peptidoglycan binding site; other site 716544003200 UDP-N-acetylmuramoylalanine--D-glutamate ligase; Region: murD; TIGR01087 716544003201 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544003202 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 716544003203 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 716544003204 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 716544003205 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 716544003206 Mg++ binding site [ion binding]; other site 716544003207 putative catalytic motif [active] 716544003208 putative substrate binding site [chemical binding]; other site 716544003209 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 716544003210 Di-iron ligands [ion binding]; other site 716544003211 Axonemal dynein light chain; Region: Ax_dynein_light; pfam10211 716544003212 Predicted methyltransferases [General function prediction only]; Region: COG0313 716544003213 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 716544003214 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 716544003215 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 716544003216 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 716544003217 dimerization interface [polypeptide binding]; other site 716544003218 active site 716544003219 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 716544003220 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 716544003221 ring oligomerisation interface [polypeptide binding]; other site 716544003222 ATP/Mg binding site [chemical binding]; other site 716544003223 stacking interactions; other site 716544003224 hinge regions; other site 716544003225 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 716544003226 intersubunit interface [polypeptide binding]; other site 716544003227 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 716544003228 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 716544003229 ABC-ATPase subunit interface; other site 716544003230 dimer interface [polypeptide binding]; other site 716544003231 putative PBP binding regions; other site 716544003232 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 716544003233 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 716544003234 Walker A/P-loop; other site 716544003235 ATP binding site [chemical binding]; other site 716544003236 Q-loop/lid; other site 716544003237 ABC transporter signature motif; other site 716544003238 Walker B; other site 716544003239 D-loop; other site 716544003240 H-loop/switch region; other site 716544003241 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 716544003242 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 716544003243 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 716544003244 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 716544003245 active site 716544003246 substrate binding site [chemical binding]; other site 716544003247 metal binding site [ion binding]; metal-binding site 716544003248 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 716544003249 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 716544003250 ATP binding site [chemical binding]; other site 716544003251 Mg++ binding site [ion binding]; other site 716544003252 motif III; other site 716544003253 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 716544003254 nucleotide binding region [chemical binding]; other site 716544003255 ATP-binding site [chemical binding]; other site 716544003256 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 716544003257 classical (c) SDRs; Region: SDR_c; cd05233 716544003258 NAD(P) binding site [chemical binding]; other site 716544003259 active site 716544003260 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 716544003261 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 716544003262 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 716544003263 Zn2+ binding site [ion binding]; other site 716544003264 Mg2+ binding site [ion binding]; other site 716544003265 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 716544003266 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 716544003267 NAD binding site [chemical binding]; other site 716544003268 homodimer interface [polypeptide binding]; other site 716544003269 active site 716544003270 substrate binding site [chemical binding]; other site 716544003271 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 716544003272 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 716544003273 putative transposase OrfB; Reviewed; Region: PHA02517 716544003274 Integrase core domain; Region: rve; cl01316 716544003275 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 716544003276 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 716544003277 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06305 716544003278 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 716544003279 Walker A motif; other site 716544003280 ATP binding site [chemical binding]; other site 716544003281 Walker B motif; other site 716544003282 arginine finger; other site 716544003283 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 716544003284 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 716544003285 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 716544003286 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 716544003287 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 716544003288 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; cl09155 716544003289 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 716544003290 dimerization domain swap beta strand [polypeptide binding]; other site 716544003291 regulatory protein interface [polypeptide binding]; other site 716544003292 active site 716544003293 regulatory phosphorylation site [posttranslational modification]; other site 716544003294 HPr kinase/phosphorylase; Provisional; Region: PRK05428 716544003295 DRTGG domain; Region: DRTGG; cl12147 716544003296 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 716544003297 Hpr binding site; other site 716544003298 active site 716544003299 homohexamer subunit interaction site [polypeptide binding]; other site 716544003300 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 716544003301 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 716544003302 Competence protein; Region: Competence; cl00471 716544003303 Bacitracin resistance protein BacA; Region: BacA; cl00858 716544003304 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544003305 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 716544003306 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 716544003307 chaperone protein DnaJ; Provisional; Region: PRK14284 716544003308 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 716544003309 HSP70 interaction site [polypeptide binding]; other site 716544003310 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 716544003311 Zn binding sites [ion binding]; other site 716544003312 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 716544003313 dimer interface [polypeptide binding]; other site 716544003314 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 716544003315 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 716544003316 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 716544003317 ATP-dependent protease La; Region: lon; TIGR00763 716544003318 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 716544003319 Walker A motif; other site 716544003320 ATP binding site [chemical binding]; other site 716544003321 Walker B motif; other site 716544003322 arginine finger; other site 716544003323 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 716544003324 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 716544003325 active site 716544003326 nucleotide binding site [chemical binding]; other site 716544003327 HIGH motif; other site 716544003328 KMSKS motif; other site 716544003329 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 716544003330 Rhomboid family; Region: Rhomboid; cl11446 716544003331 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 716544003332 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 716544003333 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 716544003334 Int/Topo IB signature motif; other site 716544003335 active site 716544003336 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 716544003337 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 716544003338 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 716544003339 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544003340 Walker A/P-loop; other site 716544003341 ATP binding site [chemical binding]; other site 716544003342 Q-loop/lid; other site 716544003343 ABC transporter signature motif; other site 716544003344 Walker B; other site 716544003345 D-loop; other site 716544003346 H-loop/switch region; other site 716544003347 ABC transporter; Region: ABC_tran_2; pfam12848 716544003348 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 716544003349 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 716544003350 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 716544003351 GTP cyclohydrolase I; Provisional; Region: PLN03044 716544003352 active site 716544003353 gamma-glutamyl kinase; Provisional; Region: PRK05429 716544003354 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 716544003355 nucleotide binding site [chemical binding]; other site 716544003356 homotetrameric interface [polypeptide binding]; other site 716544003357 putative phosphate binding site [ion binding]; other site 716544003358 putative allosteric binding site; other site 716544003359 PUA domain; Region: PUA; cl00607 716544003360 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 716544003361 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 716544003362 putative catalytic cysteine [active] 716544003363 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 716544003364 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544003365 NAD(P) binding pocket [chemical binding]; other site 716544003366 ferrochelatase; Reviewed; Region: hemH; PRK00035 716544003367 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 716544003368 C-terminal domain interface [polypeptide binding]; other site 716544003369 active site 716544003370 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 716544003371 active site 716544003372 N-terminal domain interface [polypeptide binding]; other site 716544003373 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 716544003374 Putative zinc ribbon domain; Region: DUF164; pfam02591 716544003375 serine hydroxymethyltransferase; Provisional; Region: PRK13580 716544003376 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 716544003377 dimer interface [polypeptide binding]; other site 716544003378 glycine-pyridoxal phosphate binding site [chemical binding]; other site 716544003379 active site 716544003380 folate binding site [chemical binding]; other site 716544003381 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 716544003382 oligomer interface [polypeptide binding]; other site 716544003383 active site residues [active] 716544003384 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 716544003385 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 716544003386 Uncharacterised protein family (UPF0158); Region: UPF0158; pfam03682 716544003387 RF-1 domain; Region: RF-1; cl02875 716544003388 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 716544003389 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 716544003390 Aminotransferase class-V; Region: Aminotran_5; pfam00266 716544003391 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 716544003392 catalytic residue [active] 716544003393 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 716544003394 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 716544003395 tetramer interface [polypeptide binding]; other site 716544003396 pyridoxal 5'-phosphate binding site [chemical binding]; other site 716544003397 catalytic residue [active] 716544003398 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 716544003399 short chain dehydrogenase; Provisional; Region: PRK08278 716544003400 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 716544003401 NAD(P) binding site [chemical binding]; other site 716544003402 homodimer interface [polypeptide binding]; other site 716544003403 active site 716544003404 putative efflux protein, MATE family; Region: matE; TIGR00797 716544003405 MatE; Region: MatE; cl10513 716544003406 MatE; Region: MatE; cl10513 716544003407 3-ketoacyl-CoA thiolase; Provisional; Region: PTZ00455 716544003408 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 716544003409 active site 716544003410 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; cl12011 716544003411 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 716544003412 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 716544003413 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 716544003414 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 716544003415 substrate binding site [chemical binding]; other site 716544003416 oxyanion hole (OAH) forming residues; other site 716544003417 trimer interface [polypeptide binding]; other site 716544003418 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 716544003419 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 716544003420 tetramer interface [polypeptide binding]; other site 716544003421 active site 716544003422 Mg2+/Mn2+ binding site [ion binding]; other site 716544003423 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 716544003424 dimer interface [polypeptide binding]; other site 716544003425 Citrate synthase; Region: Citrate_synt; pfam00285 716544003426 active site 716544003427 citrylCoA binding site [chemical binding]; other site 716544003428 oxalacetate/citrate binding site [chemical binding]; other site 716544003429 coenzyme A binding site [chemical binding]; other site 716544003430 catalytic triad [active] 716544003431 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 716544003432 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 716544003433 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 716544003434 putative substrate translocation pore; other site 716544003435 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 716544003436 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 716544003437 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 716544003438 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 716544003439 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 716544003440 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 716544003441 alphaNTD homodimer interface [polypeptide binding]; other site 716544003442 alphaNTD - beta interaction site [polypeptide binding]; other site 716544003443 alphaNTD - beta' interaction site [polypeptide binding]; other site 716544003444 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 716544003445 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 716544003446 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 716544003447 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 716544003448 SecY translocase; Region: SecY; pfam00344 716544003449 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 716544003450 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 716544003451 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 716544003452 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 716544003453 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 716544003454 5S rRNA interface [nucleotide binding]; other site 716544003455 23S rRNA interface [nucleotide binding]; other site 716544003456 L5 interface [polypeptide binding]; other site 716544003457 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 716544003458 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 716544003459 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 716544003460 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 716544003461 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 716544003462 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 716544003463 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 716544003464 Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]; Region: RplX; COG0198 716544003465 KOW motif; Region: KOW; cl00354 716544003466 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 716544003467 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 716544003468 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; cl09943 716544003469 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 716544003470 23S rRNA interface [nucleotide binding]; other site 716544003471 5S rRNA interface [nucleotide binding]; other site 716544003472 putative antibiotic binding site [chemical binding]; other site 716544003473 L25 interface [polypeptide binding]; other site 716544003474 L27 interface [polypeptide binding]; other site 716544003475 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 716544003476 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 716544003477 G-X-X-G motif; other site 716544003478 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 716544003479 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 716544003480 putative translocon binding site; other site 716544003481 protein-rRNA interface [nucleotide binding]; other site 716544003482 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 716544003483 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 716544003484 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 716544003485 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 716544003486 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 716544003487 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 716544003488 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 716544003489 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 716544003490 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 716544003491 putative active site [active] 716544003492 substrate binding site [chemical binding]; other site 716544003493 putative cosubstrate binding site; other site 716544003494 catalytic site [active] 716544003495 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 716544003496 substrate binding site [chemical binding]; other site 716544003497 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 716544003498 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 716544003499 active site 716544003500 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 716544003501 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 716544003502 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 716544003503 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 716544003504 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 716544003505 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 716544003506 putative active site [active] 716544003507 catalytic triad [active] 716544003508 putative dimer interface [polypeptide binding]; other site 716544003509 Tir chaperone protein (CesT); Region: CesT; cl08444 716544003510 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 716544003511 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 716544003512 metal binding triad; other site 716544003513 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 716544003514 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 716544003515 putative catalytic site [active] 716544003516 putative metal binding site [ion binding]; other site 716544003517 putative phosphate binding site [ion binding]; other site 716544003518 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 716544003519 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; cl12011 716544003520 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 716544003521 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 716544003522 S-adenosylmethionine binding site [chemical binding]; other site 716544003523 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 716544003524 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 716544003525 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 716544003526 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 716544003527 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 716544003528 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 716544003529 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 716544003530 generic binding surface II; other site 716544003531 generic binding surface I; other site 716544003532 regulatory protein UhpC; Provisional; Region: PRK11663 716544003533 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 716544003534 putative substrate translocation pore; other site 716544003535 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cl00062 716544003536 phosphopeptide binding site; other site 716544003537 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 716544003538 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 ATP-dependent...; Region: HisRS-like_core; cd00773 716544003539 dimer interface [polypeptide binding]; other site 716544003540 motif 1; other site 716544003541 active site 716544003542 motif 2; other site 716544003543 motif 3; other site 716544003544 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 716544003545 anticodon binding site; other site 716544003546 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 716544003547 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 716544003548 dimer interface [polypeptide binding]; other site 716544003549 anticodon binding site; other site 716544003550 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 the...; Region: AspRS_core; cd00777 716544003551 homodimer interface [polypeptide binding]; other site 716544003552 motif 1; other site 716544003553 active site 716544003554 motif 2; other site 716544003555 GAD domain; Region: GAD; pfam02938 716544003556 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 the...; Region: AspRS_core; cd00777 716544003557 motif 3; other site 716544003558 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 716544003559 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 716544003560 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 716544003561 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 716544003562 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 716544003563 catalytic residues [active] 716544003564 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 716544003565 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 716544003566 active site residue [active] 716544003567 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 716544003568 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 716544003569 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 716544003570 putative tRNA-binding site [nucleotide binding]; other site 716544003571 B3/4 domain; Region: B3_4; cl11458 716544003572 tRNA synthetase B5 domain; Region: B5; cl08394 716544003573 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 716544003574 dimer interface [polypeptide binding]; other site 716544003575 motif 1; other site 716544003576 motif 3; other site 716544003577 motif 2; other site 716544003578 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 716544003579 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 716544003580 active site 716544003581 multimer interface [polypeptide binding]; other site 716544003582 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 716544003583 Glutamine amidotransferase class-I; Region: GATase; pfam00117 716544003584 glutamine binding [chemical binding]; other site 716544003585 catalytic triad [active] 716544003586 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 716544003587 active site 716544003588 multimer interface [polypeptide binding]; other site 716544003589 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 716544003590 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 716544003591 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 716544003592 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 716544003593 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 716544003594 Walker A/P-loop; other site 716544003595 ATP binding site [chemical binding]; other site 716544003596 Q-loop/lid; other site 716544003597 ABC transporter signature motif; other site 716544003598 Walker B; other site 716544003599 D-loop; other site 716544003600 H-loop/switch region; other site 716544003601 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 716544003602 NeuB family; Region: NeuB; cl00496 716544003603 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 716544003604 catalytic center binding site [active] 716544003605 ATP binding site [chemical binding]; other site 716544003606 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837; cl00794 716544003607 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 716544003608 putative active site [active] 716544003609 dimerization interface [polypeptide binding]; other site 716544003610 putative tRNAtyr binding site [nucleotide binding]; other site 716544003611 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 716544003612 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 716544003613 RNA binding surface [nucleotide binding]; other site 716544003614 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 716544003615 active site 716544003616 RecX family; Region: RecX; cl00936 716544003617 DNA topoisomerase IV subunit A; Provisional; Region: PRK09631 716544003618 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 in DNA...; Region: TOP4c; cl00148 716544003619 CAP-like domain; other site 716544003620 active site 716544003621 primary dimer interface [polypeptide binding]; other site 716544003622 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 716544003623 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 716544003624 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 716544003625 anchoring element; other site 716544003626 dimer interface [polypeptide binding]; other site 716544003627 ATP binding site [chemical binding]; other site 716544003628 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 716544003629 active site 716544003630 putative metal-binding site [ion binding]; other site 716544003631 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 716544003632 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 716544003633 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 716544003634 NAD(P) binding site [chemical binding]; other site 716544003635 homodimer interface [polypeptide binding]; other site 716544003636 substrate binding site [chemical binding]; other site 716544003637 active site 716544003638 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 716544003639 tRNA; other site 716544003640 putative tRNA binding site [nucleotide binding]; other site 716544003641 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 716544003642 putative NADP binding site [chemical binding]; other site 716544003643 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 716544003644 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 716544003645 putative dimer interface [polypeptide binding]; other site 716544003646 putative anticodon binding site; other site 716544003647 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 716544003648 homodimer interface [polypeptide binding]; other site 716544003649 motif 1; other site 716544003650 motif 2; other site 716544003651 active site 716544003652 motif 3; other site 716544003653 endonuclease IV; Provisional; Region: PRK01060 716544003654 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; cd00019 716544003655 AP (apurinic/apyrimidinic) site pocket; other site 716544003656 DNA interaction; other site 716544003657 Metal-binding active site; metal-binding site 716544003658 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 716544003659 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 716544003660 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 716544003661 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 716544003662 RNA binding surface [nucleotide binding]; other site 716544003663 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 716544003664 phosphorylation site [posttranslational modification] 716544003665 dimer interface [polypeptide binding]; other site 716544003666 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 716544003667 ATP binding site [chemical binding]; other site 716544003668 G-X-G motif; other site 716544003669 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 716544003670 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 716544003671 active site 716544003672 phosphorylation site [posttranslational modification] 716544003673 intermolecular recognition site; other site 716544003674 dimerization interface [polypeptide binding]; other site 716544003675 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 716544003676 Walker A motif; other site 716544003677 ATP binding site [chemical binding]; other site 716544003678 Walker B motif; other site 716544003679 arginine finger; other site 716544003680 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 716544003681 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 716544003682 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; cl15358 716544003683 Integrase core domain; Region: rve; cl01316 716544003684 Transposase [DNA replication, recombination, and repair]; Region: COG5421 716544003685 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 716544003686 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 716544003687 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 716544003688 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 716544003689 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; cl15358 716544003690 Integrase core domain; Region: rve; cl01316 716544003691 Thiamine pyrophosphokinase; Region: TPK; cl09135 716544003692 Thiamine pyrophosphokinase; Region: TPK; cl09135 716544003693 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 716544003694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 716544003695 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 716544003696 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 716544003697 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 A site; Region: RaiA; cd00552 716544003698 30S subunit binding site; other site 716544003699 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 716544003700 Recombination protein O N terminal; Region: RecO_N; pfam11967 716544003701 Recombination protein O C terminal; Region: RecO_C; pfam02565 716544003702 Uncharacterised ACR, YagE family COG1723; Region: DUF155; cl00751 716544003703 Domain of unknown function DUF37; Region: DUF37; cl00506 716544003704 ATP cone domain; Region: ATP-cone; pfam03477 716544003705 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 716544003706 ATP cone domain; Region: ATP-cone; pfam03477 716544003707 Class I ribonucleotide reductase; Region: RNR_I; cd01679 716544003708 active site 716544003709 dimer interface [polypeptide binding]; other site 716544003710 catalytic residues [active] 716544003711 effector binding site; other site 716544003712 R2 peptide binding site; other site 716544003713 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 716544003714 dimer interface [polypeptide binding]; other site 716544003715 putative radical transfer pathway; other site 716544003716 diiron center [ion binding]; other site 716544003717 tyrosyl radical; other site 716544003718 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 716544003719 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 716544003720 active site 716544003721 substrate-binding site [chemical binding]; other site 716544003722 metal-binding site [ion binding] 716544003723 GTP binding site [chemical binding]; other site 716544003724 rod shape-determining protein MreB; Provisional; Region: PRK13927 716544003725 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 716544003726 ATP binding site [chemical binding]; other site 716544003727 gelsolin binding site; other site 716544003728 profilin binding site; other site 716544003729 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 716544003730 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 716544003731 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 716544003732 ATP binding site [chemical binding]; other site 716544003733 putative Mg++ binding site [ion binding]; other site 716544003734 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 716544003735 nucleotide binding region [chemical binding]; other site 716544003736 ATP-binding site [chemical binding]; other site 716544003737 trigger factor; Provisional; Region: tig; PRK01490 716544003738 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 716544003739 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 716544003740 oligomer interface [polypeptide binding]; other site 716544003741 active site residues [active] 716544003742 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 716544003743 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 716544003744 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 716544003745 Walker A motif; other site 716544003746 ATP binding site [chemical binding]; other site 716544003747 Walker B motif; other site 716544003748 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 716544003749 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 716544003750 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 716544003751 binding surface 716544003752 TPR motif; other site 716544003753 Prominin; Region: Prominin; pfam05478 716544003754 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 716544003755 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 716544003756 binding surface 716544003757 TPR motif; other site 716544003758 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 716544003759 Tir chaperone protein (CesT); Region: CesT; cl08444 716544003760 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 716544003761 phosphopeptide binding site; other site 716544003762 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 716544003763 phosphopeptide binding site; other site 716544003764 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 716544003765 type III secretion system ATPase; Provisional; Region: PRK06315 716544003766 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 716544003767 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 716544003768 Walker A motif/ATP binding site; other site 716544003769 Walker B motif; other site 716544003770 type III secretion system protein; Validated; Region: PRK05933 716544003771 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 716544003772 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 716544003773 Catalytic domain of Protein Kinases; Region: PKc; cd00180 716544003774 active site 716544003775 ATP binding site [chemical binding]; other site 716544003776 substrate binding site [chemical binding]; other site 716544003777 activation loop (A-loop); other site 716544003778 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 716544003779 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 716544003780 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 716544003781 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 716544003782 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 716544003783 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 716544003784 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 716544003785 Domain of unknown function DUF37; Region: DUF37; cl00506 716544003786 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 716544003787 Permease family; Region: Xan_ur_permease; cl00967 716544003788 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 716544003789 GTP-binding protein Der; Reviewed; Region: PRK00093 716544003790 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA1; cd01894 716544003791 G1 box; other site 716544003792 GTP/Mg2+ binding site [chemical binding]; other site 716544003793 Switch I region; other site 716544003794 G2 box; other site 716544003795 Switch II region; other site 716544003796 G3 box; other site 716544003797 G4 box; other site 716544003798 G5 box; other site 716544003799 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA2; cd01895 716544003800 G1 box; other site 716544003801 GTP/Mg2+ binding site [chemical binding]; other site 716544003802 Switch I region; other site 716544003803 G2 box; other site 716544003804 G3 box; other site 716544003805 Switch II region; other site 716544003806 G4 box; other site 716544003807 G5 box; other site 716544003808 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 716544003809 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 716544003810 ATP binding site [chemical binding]; other site 716544003811 putative Mg++ binding site [ion binding]; other site 716544003812 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 716544003813 nucleotide binding region [chemical binding]; other site 716544003814 ATP-binding site [chemical binding]; other site 716544003815 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 716544003816 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 716544003817 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544003818 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 716544003819 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 716544003820 Walker A/P-loop; other site 716544003821 ATP binding site [chemical binding]; other site 716544003822 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 716544003823 ABC transporter signature motif; other site 716544003824 Walker B; other site 716544003825 D-loop; other site 716544003826 H-loop/switch region; other site 716544003827 seryl-tRNA synthetase; Provisional; Region: PRK05431 716544003828 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 716544003829 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 bound...; Region: SerRS_core; cd00770 716544003830 dimer interface [polypeptide binding]; other site 716544003831 active site 716544003832 motif 1; other site 716544003833 motif 2; other site 716544003834 motif 3; other site 716544003835 CCC1-related family of proteins; Region: CCC1_like; cl00278 716544003836 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 716544003837 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 716544003838 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 716544003839 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 716544003840 glutamate dehydrogenase 2; Provisional; Region: PTZ00324 716544003841 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544003842 NAD(P) binding pocket [chemical binding]; other site 716544003843 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 716544003844 HrcA protein C terminal domain; Region: HrcA; pfam01628 716544003845 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 716544003846 dimer interface [polypeptide binding]; other site 716544003847 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 716544003848 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 716544003849 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 716544003850 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 716544003851 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 716544003852 dimer interface [polypeptide binding]; other site 716544003853 PYR/PP interface [polypeptide binding]; other site 716544003854 TPP binding site [chemical binding]; other site 716544003855 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 716544003856 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 716544003857 TPP-binding site [chemical binding]; other site 716544003858 dimer interface [polypeptide binding]; other site 716544003859 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 716544003860 dimer interface [polypeptide binding]; other site 716544003861 catalytic triad [active] 716544003862 Domain of unknown function DUF; Region: DUF202; cl09954 716544003863 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 716544003864 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 716544003865 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 716544003866 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 716544003867 tandem repeat interface [polypeptide binding]; other site 716544003868 oligomer interface [polypeptide binding]; other site 716544003869 active site residues [active] 716544003870 DNA polymerase I; Provisional; Region: PRK05755 716544003871 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 716544003872 active site 716544003873 metal binding site 1 [ion binding]; metal-binding site 716544003874 putative 5' ssDNA interaction site; other site 716544003875 metal binding site 3; metal-binding site 716544003876 metal binding site 2 [ion binding]; metal-binding site 716544003877 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 716544003878 putative DNA binding site [nucleotide binding]; other site 716544003879 putative metal binding site [ion binding]; other site 716544003880 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 716544003881 active site 716544003882 catalytic site [active] 716544003883 substrate binding site [chemical binding]; other site 716544003884 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 716544003885 active site 716544003886 DNA binding site [nucleotide binding] 716544003887 catalytic site [active] 716544003888 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 716544003889 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 716544003890 CoA-binding site [chemical binding]; other site 716544003891 ATP-binding [chemical binding]; other site 716544003892 transcription termination factor Rho; Provisional; Region: rho; PRK09376 716544003893 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 716544003894 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 716544003895 RNA binding site [nucleotide binding]; other site 716544003896 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 716544003897 multimer interface [polypeptide binding]; other site 716544003898 Walker A motif; other site 716544003899 ATP binding site [chemical binding]; other site 716544003900 Walker B motif; other site 716544003901 GTPase CgtA; Reviewed; Region: obgE; PRK12299 716544003902 GTP1/OBG; Region: GTP1_OBG; pfam01018 716544003903 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 716544003904 G1 box; other site 716544003905 GTP/Mg2+ binding site [chemical binding]; other site 716544003906 Switch I region; other site 716544003907 G2 box; other site 716544003908 G3 box; other site 716544003909 Switch II region; other site 716544003910 G4 box; other site 716544003911 G5 box; other site 716544003912 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 716544003913 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 716544003914 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 716544003915 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544003916 inosine-5'-monophosphate dehydrogenase; Provisional; Region: PTZ00314 716544003917 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; cl09108 716544003918 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 key...; Region: CBS_pair_IMPDH_2; cd04602 716544003919 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 the guanine...; Region: IMPDH; cd00381 716544003920 active site 716544003921 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 716544003922 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 716544003923 purine monophosphate binding site [chemical binding]; other site 716544003924 dimer interface [polypeptide binding]; other site 716544003925 putative catalytic residues [active] 716544003926 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 716544003927 emp24/gp25L/p24 family/GOLD; Region: EMP24_GP25L; pfam01105 716544003928 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; cl09108 716544003929 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 716544003930 dimer interface [polypeptide binding]; other site 716544003931 substrate binding site [chemical binding]; other site 716544003932 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 716544003933 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 716544003934 binding surface 716544003935 TPR motif; other site 716544003936 GMP synthase; Reviewed; Region: guaA; PRK00074 716544003937 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 716544003938 AMP/PPi binding site [chemical binding]; other site 716544003939 candidate oxyanion hole; other site 716544003940 catalytic triad [active] 716544003941 potential glutamine specificity residues [chemical binding]; other site 716544003942 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 716544003943 ATP Binding subdomain [chemical binding]; other site 716544003944 Ligand Binding sites [chemical binding]; other site 716544003945 Dimerization subdomain; other site 716544003946 methionine aminopeptidase; Provisional; Region: PRK08671 716544003947 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 716544003948 active site 716544003949 C-terminal peptidase (prc); Region: prc; TIGR00225 716544003950 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 716544003951 protein binding site [polypeptide binding]; other site 716544003952 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 716544003953 Catalytic dyad [active] 716544003954 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 716544003955 ScpA/B protein; Region: ScpA_ScpB; cl00598 716544003956 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 716544003957 Cation transport protein; Region: TrkH; cl10514 716544003958 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 716544003959 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 716544003960 ABC-ATPase subunit interface; other site 716544003961 dimer interface [polypeptide binding]; other site 716544003962 putative PBP binding regions; other site 716544003963 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 716544003964 ABC-ATPase subunit interface; other site 716544003965 dimer interface [polypeptide binding]; other site 716544003966 putative PBP binding regions; other site 716544003967 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 716544003968 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 716544003969 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 716544003970 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 716544003971 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 716544003972 intersubunit interface [polypeptide binding]; other site 716544003973 Protein of unknown function (DUF971); Region: DUF971; cl01414 716544003974 septum-site determining protein; Validated; Region: minD; CHL00175 716544003975 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 716544003976 Walker A motif; other site 716544003977 TLC ATP/ADP transporter; Region: TLC; cl03940 716544003978 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK12911 716544003979 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK12911 716544003980 Protein export membrane protein; Region: SecD_SecF; cl14618 716544003981 Protein export membrane protein; Region: SecD_SecF; cl14618 716544003982 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 716544003983 DHH family; Region: DHH; pfam01368 716544003984 DHHA1 domain; Region: DHHA1; pfam02272 716544003985 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 716544003986 carboxy-terminal protease; Provisional; Region: PRK11186 716544003987 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 716544003988 protein binding site [polypeptide binding]; other site 716544003989 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 716544003990 Catalytic dyad [active] 716544003991 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 716544003992 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 716544003993 HIGH motif; other site 716544003994 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 716544003995 active site 716544003996 KMSKS motif; other site 716544003997 Raffinose synthase or seed inhibition protein Sip1; Region: Raffinose_syn; cl14104 716544003998 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 716544003999 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 716544004000 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 716544004001 Transposase, Mutator family; Region: Transposase_mut; pfam00872 716544004002 MULE transposase domain; Region: MULE; pfam10551 716544004003 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 716544004004 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 716544004005 cofactor binding site; other site 716544004006 DNA binding site [nucleotide binding] 716544004007 substrate interaction site [chemical binding]; other site 716544004008 Eco47II restriction endonuclease; Region: RE_Eco47II; pfam09553 716544004009 Transposase, Mutator family; Region: Transposase_mut; pfam00872 716544004010 MULE transposase domain; Region: MULE; pfam10551 716544004011 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 716544004012 putative transposase OrfB; Reviewed; Region: PHA02517 716544004013 Integrase core domain; Region: rve; cl01316 716544004014 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 716544004015 metal binding site 2 [ion binding]; metal-binding site 716544004016 putative DNA binding helix; other site 716544004017 metal binding site 1 [ion binding]; metal-binding site 716544004018 dimer interface [polypeptide binding]; other site 716544004019 structural Zn2+ binding site [ion binding]; other site 716544004020 TLC ATP/ADP transporter; Region: TLC; cl03940 716544004021 TLC ATP/ADP transporter; Region: TLC; cl03940 716544004022 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 716544004023 substrate binding site [chemical binding]; other site 716544004024 hinge regions; other site 716544004025 ADP binding site [chemical binding]; other site 716544004026 catalytic site [active] 716544004027 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13152 716544004028 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 716544004029 predicted active site [active] 716544004030 catalytic triad [active] 716544004031 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 716544004032 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 716544004033 active site 716544004034 multimer interface [polypeptide binding]; other site 716544004035 DNA polymerase III subunit epsilon; Validated; Region: PRK06310 716544004036 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 716544004037 active site 716544004038 substrate binding site [chemical binding]; other site 716544004039 catalytic site [active] 716544004040 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 716544004041 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 716544004042 G1 box; other site 716544004043 GTP/Mg2+ binding site [chemical binding]; other site 716544004044 Switch I region; other site 716544004045 G2 box; other site 716544004046 G3 box; other site 716544004047 Switch II region; other site 716544004048 G4 box; other site 716544004049 G5 box; other site 716544004050 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 716544004051 Protein of unknown function (DUF2709); Region: DUF2709; pfam10915 716544004052 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 716544004053 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 716544004054 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 716544004055 NAD binding site [chemical binding]; other site 716544004056 Phe binding site; other site 716544004057 arginine-tRNA ligase; Region: PLN02286 716544004058 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 716544004059 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 716544004060 active site 716544004061 HIGH motif; other site 716544004062 KMSK motif region; other site 716544004063 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 716544004064 tRNA binding surface [nucleotide binding]; other site 716544004065 anticodon binding site; other site 716544004066 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 716544004067 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 716544004068 metal-binding site [ion binding] 716544004069 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 716544004070 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 716544004071 ParB-like partition proteins; Region: parB_part; TIGR00180 716544004072 ParB-like nuclease domain; Region: ParBc; cl02129 716544004073 KorB domain; Region: KorB; pfam08535 716544004074 DNA topoisomerase I/SWI domain fusion protein; Validated; Region: PRK06319 716544004075 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 716544004076 active site 716544004077 interdomain interaction site; other site 716544004078 putative metal-binding site [ion binding]; other site 716544004079 nucleotide binding site [chemical binding]; other site 716544004080 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 716544004081 domain I; other site 716544004082 DNA binding groove [nucleotide binding] 716544004083 phosphate binding site [ion binding]; other site 716544004084 domain II; other site 716544004085 domain III; other site 716544004086 nucleotide binding site [chemical binding]; other site 716544004087 catalytic site [active] 716544004088 domain IV; other site 716544004089 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 716544004090 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 716544004091 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 716544004092 SWIB/MDM2 domain; Region: SWIB; cl02489 716544004093 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 716544004094 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 716544004095 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 716544004096 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 716544004097 ABC-2 type transporter; Region: ABC2_membrane; cl11417 716544004098 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 716544004099 ABC-2 type transporter; Region: ABC2_membrane; cl11417 716544004100 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 716544004101 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 716544004102 Walker A/P-loop; other site 716544004103 ATP binding site [chemical binding]; other site 716544004104 Q-loop/lid; other site 716544004105 ABC transporter signature motif; other site 716544004106 Walker B; other site 716544004107 D-loop; other site 716544004108 H-loop/switch region; other site 716544004109 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 716544004110 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 716544004111 Walker A/P-loop; other site 716544004112 ATP binding site [chemical binding]; other site 716544004113 Q-loop/lid; other site 716544004114 ABC transporter signature motif; other site 716544004115 Walker B; other site 716544004116 D-loop; other site 716544004117 H-loop/switch region; other site 716544004118 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 716544004119 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 716544004120 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 716544004121 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 716544004122 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 716544004123 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; cl15357 716544004124 transmembrane helices; other site 716544004125 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 716544004126 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; cl15357 716544004127 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; cl15357 716544004128 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; cl15357 716544004129 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 716544004130 KpsF/GutQ family protein; Region: kpsF; TIGR00393 716544004131 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 716544004132 putative active site [active] 716544004133 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 716544004134 isocitrate dehydrogenase; Validated; Region: PRK09222 716544004135 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 716544004136 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 716544004137 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 716544004138 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 716544004139 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 716544004140 dimer interface [polypeptide binding]; other site 716544004141 active site 716544004142 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 716544004143 FAD binding site [chemical binding]; other site 716544004144 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase; Provisional; Region: PRK08575 716544004145 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 716544004146 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 716544004147 methionine synthase; Provisional; Region: PRK01207 716544004148 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 716544004149 substrate binding site [chemical binding]; other site 716544004150 THF binding site; other site 716544004151 zinc-binding site [ion binding]; other site 716544004152 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 716544004153 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 716544004154 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 716544004155 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; cl02529 716544004156 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 716544004157 active site 716544004158 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 716544004159 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 716544004160 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 716544004161 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; cl12011 716544004162 competence damage-inducible protein A; Provisional; Region: PRK00549 716544004163 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 716544004164 putative MPT binding site; other site 716544004165 Competence-damaged protein; Region: CinA; cl00666 716544004166 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 716544004167 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 716544004168 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 716544004169 ATP cone domain; Region: ATP-cone; pfam03477 716544004170 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 716544004171 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; cl12011 716544004172 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 716544004173 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 716544004174 Walker A motif; other site 716544004175 ATP binding site [chemical binding]; other site 716544004176 Walker B motif; other site 716544004177 arginine finger; other site 716544004178 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 716544004179 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 716544004180 active site 716544004181 dimerization interface [polypeptide binding]; other site 716544004182 Uncharacterized conserved protein [Function unknown]; Region: COG4285 716544004183 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 716544004184 conserved cys residue [active] 716544004185 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 716544004186 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 716544004187 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 716544004188 active site residue [active] 716544004189 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 716544004190 active site residue [active] 716544004191 Predicted membrane protein [Function unknown]; Region: COG4129 716544004192 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 716544004193 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 716544004194 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 716544004195 putative deacylase active site [active] 716544004196 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 716544004197 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 716544004198 intersubunit interface [polypeptide binding]; other site 716544004199 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 716544004200 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 716544004201 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 716544004202 ABC-ATPase subunit interface; other site 716544004203 dimer interface [polypeptide binding]; other site 716544004204 putative PBP binding regions; other site 716544004205 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544004206 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 716544004207 Walker A motif; other site 716544004208 ATP binding site [chemical binding]; other site 716544004209 Walker B motif; other site 716544004210 replicative DNA helicase; Provisional; Region: PRK06321 716544004211 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 716544004212 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 716544004213 Walker A motif; other site 716544004214 ATP binding site [chemical binding]; other site 716544004215 Walker B motif; other site 716544004216 DNA binding loops [nucleotide binding] 716544004217 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 716544004218 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 716544004219 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 716544004220 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 716544004221 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 716544004222 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 716544004223 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 716544004224 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 716544004225 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 716544004226 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 716544004227 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 716544004228 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544004229 domain; Region: Succ_DH_flav_C; pfam02910 716544004230 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis...; Region: SQR_TypeB_1_TM; cd03497 716544004231 putative Iron-sulfur protein interface [polypeptide binding]; other site 716544004232 proximal heme binding site [chemical binding]; other site 716544004233 putative dimer interface [polypeptide binding]; other site 716544004234 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 716544004235 proximal heme binding site [chemical binding]; other site 716544004236 Iron-sulfur protein interface; other site 716544004237 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 716544004238 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 716544004239 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544004240 GTP/Mg2+ binding site [chemical binding]; other site 716544004241 G4 box; other site 716544004242 G5 box; other site 716544004243 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 716544004244 G1 box; other site 716544004245 G1 box; other site 716544004246 GTP/Mg2+ binding site [chemical binding]; other site 716544004247 Switch I region; other site 716544004248 Switch I region; other site 716544004249 G2 box; other site 716544004250 G2 box; other site 716544004251 Switch II region; other site 716544004252 G3 box; other site 716544004253 G3 box; other site 716544004254 Switch II region; other site 716544004255 G4 box; other site 716544004256 G5 box; other site 716544004257 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 716544004258 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 716544004259 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 716544004260 minor groove reading motif; other site 716544004261 helix-hairpin-helix signature motif; other site 716544004262 substrate binding pocket [chemical binding]; other site 716544004263 active site 716544004264 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 716544004265 RuvA N terminal domain; Region: RuvA_N; pfam01330 716544004266 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 716544004267 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 716544004268 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 includes...; Region: RuvC_resolvase; cd00529 716544004269 active site 716544004270 putative DNA-binding cleft [nucleotide binding]; other site 716544004271 dimer interface [polypeptide binding]; other site 716544004272 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 716544004273 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 716544004274 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 716544004275 putative active site [active] 716544004276 UDP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: COG4284 716544004277 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 716544004278 active site 716544004279 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 716544004280 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544004281 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 716544004282 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 716544004283 putative carbohydrate kinase; Provisional; Region: PRK10565 716544004284 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 716544004285 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 716544004286 putative substrate binding site [chemical binding]; other site 716544004287 putative ATP binding site [chemical binding]; other site 716544004288 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 716544004289 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 716544004290 active site 716544004291 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 716544004292 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; cl12011 716544004293 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 716544004294 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 716544004295 Probable Catalytic site; other site 716544004296 metal-binding site 716544004297 putative transposase OrfB; Reviewed; Region: PHA02517 716544004298 Integrase core domain; Region: rve; cl01316 716544004299 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 716544004300 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 716544004301 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 716544004302 Catalytic domain of Protein Kinases; Region: PKc; cd00180 716544004303 active site 716544004304 ATP binding site [chemical binding]; other site 716544004305 substrate binding site [chemical binding]; other site 716544004306 activation loop (A-loop); other site 716544004307 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 716544004308 Protein export membrane protein; Region: SecD_SecF; cl14618 716544004309 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 716544004310 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 716544004311 MatE; Region: MatE; cl10513 716544004312 colanic acid exporter; Provisional; Region: PRK10459 716544004313 potential frameshift: common BLAST hit: gi|268317778|ref|YP_003291497.1| Tetratricopeptide TPR_2 repeat protein 716544004314 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 716544004315 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 716544004316 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 716544004317 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 716544004318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544004319 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 716544004320 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 716544004321 inhibitor-cofactor binding pocket; inhibition site 716544004322 pyridoxal 5'-phosphate binding site [chemical binding]; other site 716544004323 catalytic residue [active] 716544004324 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 716544004325 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544004326 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 716544004327 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 716544004328 putative trimer interface [polypeptide binding]; other site 716544004329 putative active site [active] 716544004330 putative substrate binding site [chemical binding]; other site 716544004331 putative CoA binding site [chemical binding]; other site 716544004332 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 716544004333 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 716544004334 ATP binding site [chemical binding]; other site 716544004335 putative Mg++ binding site [ion binding]; other site 716544004336 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 716544004337 nucleotide binding region [chemical binding]; other site 716544004338 ATP-binding site [chemical binding]; other site 716544004339 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 716544004340 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 716544004341 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 716544004342 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 716544004343 Protein of unknown function (DUF1186); Region: DUF1186; pfam06685 716544004344 SEC-C motif; Region: SEC-C; pfam02810 716544004345 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 716544004346 RHS Repeat; Region: RHS_repeat; cl11982 716544004347 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 716544004348 RHS Repeat; Region: RHS_repeat; cl11982 716544004349 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 716544004350 Protein of unknown function (DUF687); Region: DUF687; pfam05095 716544004351 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 716544004352 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 716544004353 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 716544004354 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 716544004355 putative NAD(P) binding site [chemical binding]; other site 716544004356 active site 716544004357 putative substrate binding site [chemical binding]; other site 716544004358 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cd00047 716544004359 Protein-tyrosine phosphatase; Region: Y_phosphatase; pfam00102 716544004360 active site 716544004361 TRAM domain; Region: TRAM; cl01282 716544004362 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 716544004363 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 716544004364 S-adenosylmethionine binding site [chemical binding]; other site 716544004365 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 716544004366 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 716544004367 tetramerization interface [polypeptide binding]; other site 716544004368 NAD(P) binding site [chemical binding]; other site 716544004369 catalytic residues [active] 716544004370 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 716544004371 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 716544004372 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544004373 Proline dehydrogenase; Region: Pro_dh; cl03282 716544004374 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 716544004375 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 716544004376 Glutamate binding site [chemical binding]; other site 716544004377 NAD binding site [chemical binding]; other site 716544004378 catalytic residues [active] 716544004379 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 716544004380 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 716544004381 oligomerisation interface [polypeptide binding]; other site 716544004382 mobile loop; other site 716544004383 roof hairpin; other site 716544004384 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 716544004385 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 716544004386 ring oligomerisation interface [polypeptide binding]; other site 716544004387 ATP/Mg binding site [chemical binding]; other site 716544004388 stacking interactions; other site 716544004389 hinge regions; other site 716544004390 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 716544004391 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 716544004392 Cation transport protein; Region: TrkH; cl10514 716544004393 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 716544004394 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544004395 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; cl15357 716544004396 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544004397 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; cl15357 716544004398 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 716544004399 RHS Repeat; Region: RHS_repeat; cl11982 716544004400 RHS Repeat; Region: RHS_repeat; cl11982 716544004401 RHS Repeat; Region: RHS_repeat; cl11982 716544004402 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 716544004403 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 716544004404 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 716544004405 putative active site [active] 716544004406 nucleotide binding site [chemical binding]; other site 716544004407 nudix motif; other site 716544004408 putative metal binding site [ion binding]; other site 716544004409 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 716544004410 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 716544004411 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 716544004412 decamer (pentamer of dimers) interface [polypeptide binding]; other site 716544004413 catalytic triad [active] 716544004414 dimer interface [polypeptide binding]; other site 716544004415 peroxidatic and resolving cysteines [active] 716544004416 enolase; Provisional; Region: eno; PRK00077 716544004417 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 716544004418 dimer interface [polypeptide binding]; other site 716544004419 metal binding site [ion binding]; metal-binding site 716544004420 substrate binding pocket [chemical binding]; other site 716544004421 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs...; Region: YjeQ_engC; cd01854 716544004422 GTPase/OB domain interface [polypeptide binding]; other site 716544004423 GTPase RsgA; Reviewed; Region: PRK00098 716544004424 GTPase/Zn-binding domain interface [polypeptide binding]; other site 716544004425 GTP/Mg2+ binding site [chemical binding]; other site 716544004426 G4 box; other site 716544004427 G5 box; other site 716544004428 G1 box; other site 716544004429 Switch I region; other site 716544004430 G2 box; other site 716544004431 G3 box; other site 716544004432 Switch II region; other site 716544004433 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 716544004434 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 716544004435 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 716544004436 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 716544004437 active site 716544004438 NTP binding site [chemical binding]; other site 716544004439 metal binding triad [ion binding]; metal-binding site 716544004440 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 716544004441 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 716544004442 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 716544004443 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 716544004444 ATP binding site [chemical binding]; other site 716544004445 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 716544004446 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 716544004447 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 716544004448 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 716544004449 active site 716544004450 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 716544004451 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 716544004452 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 716544004453 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 716544004454 dimer interface [polypeptide binding]; other site 716544004455 phosphorylation site [posttranslational modification] 716544004456 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 716544004457 ATP binding site [chemical binding]; other site 716544004458 Mg2+ binding site [ion binding]; other site 716544004459 G-X-G motif; other site 716544004460 MoxR-like ATPases [General function prediction only]; Region: COG0714 716544004461 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 716544004462 Walker A motif; other site 716544004463 ATP binding site [chemical binding]; other site 716544004464 Walker B motif; other site 716544004465 arginine finger; other site 716544004466 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544004467 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 716544004468 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 716544004469 metal ion-dependent adhesion site (MIDAS); other site 716544004470 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 716544004471 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 716544004472 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 716544004473 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 716544004474 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 716544004475 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 716544004476 trehalose synthase; Region: treS_nterm; TIGR02456 716544004477 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 716544004478 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 716544004479 glycogen branching enzyme; Provisional; Region: PRK05402 716544004480 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 716544004481 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 716544004482 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 716544004483 Transposase, Mutator family; Region: Transposase_mut; pfam00872 716544004484 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 716544004485 Integrase core domain; Region: rve; cl01316 716544004486 transposase/IS protein; Provisional; Region: PRK09183 716544004487 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 716544004488 Walker A motif; other site 716544004489 ATP binding site [chemical binding]; other site 716544004490 Walker B motif; other site 716544004491 arginine finger; other site 716544004492 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 716544004493 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 716544004494 Integrase core domain; Region: rve; cl01316 716544004495 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 716544004496 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 716544004497 ligand binding site [chemical binding]; other site 716544004498 active site 716544004499 UGI interface [polypeptide binding]; other site 716544004500 catalytic site [active] 716544004501 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 716544004502 Transposase [DNA replication, recombination, and repair]; Region: COG5433 716544004503 Transposase [DNA replication, recombination, and repair]; Region: COG5433 716544004504 putative transposase OrfB; Reviewed; Region: PHA02517 716544004505 Integrase core domain; Region: rve; cl01316 716544004506 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 716544004507 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 716544004508 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 716544004509 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 716544004510 Transposase, Mutator family; Region: Transposase_mut; pfam00872 716544004511 MULE transposase domain; Region: MULE; pfam10551 716544004512 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 716544004513 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 716544004514 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 716544004515 Protein of unknown function (DUF1494); Region: DUF1494; pfam07379 716544004516 Pseudopilin GspJ; Region: GspJ; pfam11612 716544004517 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 716544004518 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 716544004519 active site 716544004520 ATP binding site [chemical binding]; other site 716544004521 substrate binding site [chemical binding]; other site 716544004522 activation loop (A-loop); other site 716544004523 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 716544004524 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 716544004525 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 716544004526 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 716544004527 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 716544004528 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 716544004529 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 716544004530 Walker A motif; other site 716544004531 ATP binding site [chemical binding]; other site 716544004532 Walker B motif; other site 716544004533 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 716544004534 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 716544004535 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 716544004536 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 716544004537 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 716544004538 Mechanosensitive ion channel; Region: MS_channel; pfam00924 716544004539 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 716544004540 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 716544004541 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 716544004542 active site 716544004543 catalytic site [active] 716544004544 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 716544004545 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 716544004546 tetrameric interface [polypeptide binding]; other site 716544004547 NAD binding site [chemical binding]; other site 716544004548 catalytic residues [active] 716544004549 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 716544004550 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 716544004551 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 716544004552 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 716544004553 active site 716544004554 catalytic residues [active] 716544004555 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 716544004556 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 716544004557 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 716544004558 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 716544004559 rRNA interaction site [nucleotide binding]; other site 716544004560 S8 interaction site; other site 716544004561 putative laminin-1 binding site; other site 716544004562 elongation factor Ts; Provisional; Region: tsf; PRK09377 716544004563 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 716544004564 Elongation factor TS; Region: EF_TS; pfam00889 716544004565 Elongation factor TS; Region: EF_TS; pfam00889 716544004566 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 716544004567 putative nucleotide binding site [chemical binding]; other site 716544004568 uridine monophosphate binding site [chemical binding]; other site 716544004569 homohexameric interface [polypeptide binding]; other site 716544004570 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 round of...; Region: RRF; cd00520 716544004571 hinge region; other site 716544004572 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 716544004573 UvrB/uvrC motif; Region: UVR; pfam02151 716544004574 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 716544004575 Phosphagen (guanidino) kinases; Region: phosphagen_kinases; cl02823 716544004576 ADP binding site [chemical binding]; other site 716544004577 phosphagen binding site; other site 716544004578 substrate specificity loop; other site 716544004579 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 716544004580 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 716544004581 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 716544004582 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 716544004583 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; cl09940 716544004584 RNA binding surface [nucleotide binding]; other site 716544004585 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 716544004586 active site 716544004587 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 716544004588 active site 716544004589 catalytic residues [active] 716544004590 Protein of unknown function (DUF1230); Region: DUF1230; pfam06799 716544004591 Uncharacterised protein family (UPF0242); Region: UPF0242; pfam06785 716544004592 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 716544004593 Competence protein CoiA-like family; Region: CoiA; cl11541 716544004594 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 716544004595 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 716544004596 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 716544004597 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 716544004598 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 716544004599 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 716544004600 DNA binding residues [nucleotide binding] 716544004601 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 716544004602 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544004603 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 716544004604 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 716544004605 potential frameshift: common BLAST hit: gi|85859919|ref|YP_462121.1| transposase 716544004606 Transposase, Mutator family; Region: Transposase_mut; pfam00872 716544004607 MULE transposase domain; Region: MULE; pfam10551 716544004608 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 716544004609 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 716544004610 Low-spin heme binding site [chemical binding]; other site 716544004611 D-pathway; other site 716544004612 Putative water exit pathway; other site 716544004613 Binuclear center (active site) [active] 716544004614 K-pathway; other site 716544004615 Putative proton exit pathway; other site 716544004616 Cytochrome c; Region: Cytochrom_C; cl11414 716544004617 Cytochrome c; Region: Cytochrom_C; cl11414 716544004618 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 716544004619 intrachain domain interface; other site 716544004620 heme bH binding site [chemical binding]; other site 716544004621 Qi binding site; other site 716544004622 heme bL binding site [chemical binding]; other site 716544004623 interchain domain interface [polypeptide binding]; other site 716544004624 Qo binding site; other site 716544004625 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 716544004626 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 716544004627 iron-sulfur cluster [ion binding]; other site 716544004628 [2Fe-2S] cluster binding site [ion binding]; other site 716544004629 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 716544004630 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 716544004631 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544004632 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 716544004633 4Fe-4S binding domain; Region: Fer4; cl02805 716544004634 4Fe-4S binding domain; Region: Fer4; cl02805 716544004635 Acylphosphatase; Region: Acylphosphatase; cl00551 716544004636 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 716544004637 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 716544004638 FMN binding site [chemical binding]; other site 716544004639 active site 716544004640 catalytic residues [active] 716544004641 substrate binding site [chemical binding]; other site 716544004642 YGGT family; Region: YGGT; cl00508 716544004643 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 716544004644 Herpesvirus U59 protein; Region: Herpes_U59; pfam04529 716544004645 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 716544004646 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 716544004647 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 716544004648 recombinase A; Provisional; Region: recA; PRK09354 716544004649 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 716544004650 hexamer interface [polypeptide binding]; other site 716544004651 Walker A motif; other site 716544004652 ATP binding site [chemical binding]; other site 716544004653 Walker B motif; other site 716544004654 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 716544004655 Phage integrase family; Region: Phage_integrase; pfam00589 716544004656 DNA binding site [nucleotide binding] 716544004657 Int/Topo IB signature motif; other site 716544004658 active site 716544004659 catalytic residues [active] 716544004660 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 716544004661 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 716544004662 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 716544004663 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 716544004664 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 716544004665 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 716544004666 non-specific DNA binding site [nucleotide binding]; other site 716544004667 salt bridge; other site 716544004668 sequence-specific DNA binding site [nucleotide binding]; other site 716544004669 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 716544004670 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 716544004671 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 716544004672 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 716544004673 hypothetical protein; Provisional; Region: PRK14709 716544004674 D5 N terminal like; Region: D5_N; cl07360 716544004675 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 716544004676 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 716544004677 ATP binding site [chemical binding]; other site 716544004678 putative Mg++ binding site [ion binding]; other site 716544004679 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 716544004680 nucleotide binding region [chemical binding]; other site 716544004681 ATP-binding site [chemical binding]; other site 716544004682 Phage integrase family; Region: Phage_integrase; pfam00589 716544004683 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 716544004684 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 716544004685 P-loop; other site 716544004686 Magnesium ion binding site [ion binding]; other site 716544004687 PemK-like protein; Region: PemK; cl00995