-- dump date 20111121_012832 -- class Genbank::misc_feature -- table misc_feature_note -- id note 491077000001 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000002 Integrase core domain; Region: rve; cl01316 491077000003 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 491077000004 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 491077000005 NAD binding site [chemical binding]; other site 491077000006 homotetramer interface [polypeptide binding]; other site 491077000007 homodimer interface [polypeptide binding]; other site 491077000008 substrate binding site [chemical binding]; other site 491077000009 active site 491077000010 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 491077000011 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 491077000012 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 491077000013 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 491077000014 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 491077000015 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 491077000016 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 491077000017 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 491077000018 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 491077000019 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 491077000020 carboxyltransferase (CT) interaction site; other site 491077000021 biotinylation site [posttranslational modification]; other site 491077000022 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 491077000023 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 491077000024 dimer interface [polypeptide binding]; other site 491077000025 active site 491077000026 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 491077000027 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 491077000028 NAD(P) binding site [chemical binding]; other site 491077000029 homotetramer interface [polypeptide binding]; other site 491077000030 homodimer interface [polypeptide binding]; other site 491077000031 active site 491077000032 Acyl transferase domain; Region: Acyl_transf_1; cl08282 491077000033 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 491077000034 Phosphopantetheine attachment site; Region: PP-binding; cl09936 491077000035 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 491077000036 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 491077000037 dimer interface [polypeptide binding]; other site 491077000038 active site 491077000039 CoA binding pocket [chemical binding]; other site 491077000040 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077000041 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 491077000042 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 491077000043 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 491077000044 DNA binding site [nucleotide binding] 491077000045 Int/Topo IB signature motif; other site 491077000046 active site 491077000047 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077000048 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077000049 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 491077000050 active site 491077000051 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 491077000052 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 491077000053 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 491077000054 active site 491077000055 nucleophile elbow; other site 491077000056 Phage integrase family; Region: Phage_integrase; pfam00589 491077000057 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 491077000058 DNA binding site [nucleotide binding] 491077000059 Int/Topo IB signature motif; other site 491077000060 active site 491077000061 EamA-like transporter family; Region: EamA; cl01037 491077000062 EamA-like transporter family; Region: EamA; cl01037 491077000063 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 491077000064 potential frameshift: common BLAST hit: gi|184153592|ref|YP_001841933.1| nitrate reductase delta subunit 491077000065 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 491077000066 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 491077000067 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 491077000068 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 491077000069 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate...; Region: MopB_Nitrate-R-NarG-like; cd02750 491077000070 [4Fe-4S] binding site [ion binding]; other site 491077000071 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 491077000072 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 491077000073 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 491077000074 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 491077000075 molybdopterin cofactor binding site; other site 491077000076 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 491077000077 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of...; Region: ThiF_MoeB_HesA_family; cd00757 491077000078 ATP binding site [chemical binding]; other site 491077000079 substrate interface [chemical binding]; other site 491077000080 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000081 Integrase core domain; Region: rve; cl01316 491077000082 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea...; Region: MogA_MoaB; cd00886 491077000083 MPT binding site; other site 491077000084 trimer interface [polypeptide binding]; other site 491077000085 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 491077000086 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 491077000087 dimer interface [polypeptide binding]; other site 491077000088 putative functional site; other site 491077000089 putative MPT binding site; other site 491077000090 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa...; Region: MobB; cd03116 491077000091 Walker A motif; other site 491077000092 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 491077000093 GTP binding site [chemical binding]; other site 491077000094 potential frameshift: common BLAST hit: gi|307127297|ref|YP_003879328.1| transposase 491077000095 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077000096 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077000097 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-...; Region: ClC_like; cd01033 491077000098 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 491077000099 putative ion selectivity filter; other site 491077000100 putative pore gating glutamate residue; other site 491077000101 Transposase; Region: DEDD_Tnp_IS110; pfam01548 491077000102 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 491077000103 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077000104 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077000105 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 491077000106 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...; Region: AAA; cd00009 491077000107 Walker A motif; other site 491077000108 ATP binding site [chemical binding]; other site 491077000109 Walker B motif; other site 491077000110 arginine finger; other site 491077000111 potential frameshift: common BLAST hit: gi|148544274|ref|YP_001271644.1| integrase catalytic subunit 491077000112 Integrase core domain; Region: rve; cl01316 491077000113 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 491077000114 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077000115 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077000116 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000117 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 491077000118 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 491077000119 trimer interface [polypeptide binding]; other site 491077000120 active site 491077000121 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 491077000122 catalytic site [active] 491077000123 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 491077000124 active site 491077000125 Bacterial lipoprotein; Region: DUF3642; pfam12182 491077000126 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 491077000127 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 491077000128 catalytic core [active] 491077000129 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination...; Region: GlcN6P_deaminase; cd01399 491077000130 active site 491077000131 trimer interface [polypeptide binding]; other site 491077000132 allosteric site; other site 491077000133 active site lid [active] 491077000134 hexamer (dimer of trimers) interface [polypeptide binding]; other site 491077000135 Fic/DOC family; Region: Fic; cl00960 491077000136 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 491077000137 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 491077000138 putative active site [active] 491077000139 putative metal binding site [ion binding]; other site 491077000140 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 491077000141 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 491077000142 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 491077000143 Walker A/P-loop; other site 491077000144 ATP binding site [chemical binding]; other site 491077000145 Q-loop/lid; other site 491077000146 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077000147 ABC transporter signature motif; other site 491077000148 Walker B; other site 491077000149 D-loop; other site 491077000150 H-loop/switch region; other site 491077000151 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 491077000152 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 491077000153 active site 491077000154 metal binding site [ion binding]; metal-binding site 491077000155 DNA binding site [nucleotide binding] 491077000156 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 491077000157 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 491077000158 Uncharacterized conserved protein [Function unknown]; Region: COG4715 491077000159 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 491077000160 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 491077000161 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 491077000162 ATP binding site [chemical binding]; other site 491077000163 putative Mg++ binding site [ion binding]; other site 491077000164 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 491077000165 nucleotide binding region [chemical binding]; other site 491077000166 ATP-binding site [chemical binding]; other site 491077000167 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 491077000168 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077000169 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077000170 Probable transposase; Region: OrfB_IS605; pfam01385 491077000171 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 491077000172 Transposase IS200 like; Region: Y1_Tnp; cl00848 491077000173 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 491077000174 Amino acid permease; Region: AA_permease; pfam00324 491077000175 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 491077000176 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 491077000177 T-box leader; HMPREF0538_nc20003 491077000178 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 491077000179 Fic/DOC family; Region: Fic; cl00960 491077000180 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077000181 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 491077000182 potential frameshift: common BLAST hit: gi|148543390|ref|YP_001270760.1| transposase IS66 491077000183 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 491077000184 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 491077000185 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 491077000186 potential frameshift: common BLAST hit: gi|148544643|ref|YP_001272013.1| RNA-directed DNA polymerase (Reverse transcriptase) 491077000187 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077000188 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077000189 putative NTP binding site [chemical binding]; other site 491077000190 Integrase core domain; Region: rve; cl01316 491077000191 Domain of unknown function DUF87; Region: DUF87; pfam01935 491077000192 AAA-like domain; Region: AAA_10; pfam12846 491077000193 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000194 Integrase core domain; Region: rve; cl01316 491077000195 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077000196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077000197 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 491077000198 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 491077000199 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 491077000200 NADP binding site [chemical binding]; other site 491077000201 active site 491077000202 putative substrate binding site [chemical binding]; other site 491077000203 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 491077000204 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 491077000205 NAD binding site [chemical binding]; other site 491077000206 substrate binding site [chemical binding]; other site 491077000207 homodimer interface [polypeptide binding]; other site 491077000208 active site 491077000209 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491077000210 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077000211 NAD(P) binding site [chemical binding]; other site 491077000212 active site 491077000213 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 491077000214 substrate binding site [chemical binding]; other site 491077000215 dimer interface [polypeptide binding]; other site 491077000216 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 491077000217 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 491077000218 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 491077000219 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491077000220 MatE; Region: MatE; cl10513 491077000221 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 491077000222 active site 491077000223 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 491077000224 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 491077000225 active site 491077000226 UDP-D-galactose:(glucosyl)lipopolysaccharide-1, 6-D-galactosyltransferase; Provisional; Region: PRK09922 491077000227 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 491077000228 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 491077000229 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 491077000230 active site 491077000231 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 491077000232 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 491077000233 active site 491077000234 Bacterial sugar transferase; Region: Bac_transf; cl00939 491077000235 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077000236 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 491077000237 NAD(P) binding site [chemical binding]; other site 491077000238 active site 491077000239 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 491077000240 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 491077000241 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 491077000242 Nucleotide binding site [chemical binding]; other site 491077000243 DTAP/Switch II; other site 491077000244 Switch I; other site 491077000245 Chain length determinant protein; Region: Wzz; cl01623 491077000246 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 491077000247 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000248 Integrase core domain; Region: rve; cl01316 491077000249 glycerol kinase; Provisional; Region: glpK; PRK00047 491077000250 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 491077000251 N- and C-terminal domain interface [polypeptide binding]; other site 491077000252 active site 491077000253 MgATP binding site [chemical binding]; other site 491077000254 catalytic site [active] 491077000255 metal binding site [ion binding]; metal-binding site 491077000256 glycerol binding site [chemical binding]; other site 491077000257 homotetramer interface [polypeptide binding]; other site 491077000258 homodimer interface [polypeptide binding]; other site 491077000259 FBP binding site [chemical binding]; other site 491077000260 protein IIAGlc interface [polypeptide binding]; other site 491077000261 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 491077000262 active site 1 [active] 491077000263 dimer interface [polypeptide binding]; other site 491077000264 hexamer interface [polypeptide binding]; other site 491077000265 active site 2 [active] 491077000266 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 491077000267 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 491077000268 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 491077000269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077000270 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; cl09110 491077000271 Peptidase family C69; Region: Peptidase_C69; cl01920 491077000272 putative alkyl hydroperoxide reductase F subunit; Region: AhpF_homolog; TIGR03143 491077000273 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077000274 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077000275 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the...; Region: AhpF_NTD_N; cd02974 491077000276 catalytic residue [active] 491077000277 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 491077000278 catalytic residues [active] 491077000279 peroxiredoxin; Region: AhpC; TIGR03137 491077000280 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...; Region: PRX_Typ2cys; cd03015 491077000281 dimer interface [polypeptide binding]; other site 491077000282 decamer (pentamer of dimers) interface [polypeptide binding]; other site 491077000283 catalytic triad [active] 491077000284 peroxidatic and resolving cysteines [active] 491077000285 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 491077000286 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 491077000287 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 491077000288 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077000289 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077000290 putative active site [active] 491077000291 putative NTP binding site [chemical binding]; other site 491077000292 putative nucleic acid binding site [nucleotide binding]; other site 491077000293 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077000294 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077000295 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077000296 Probable transposase; Region: OrfB_IS605; pfam01385 491077000297 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 491077000298 Transposase IS200 like; Region: Y1_Tnp; cl00848 491077000299 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 491077000300 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 491077000301 active site 491077000302 metal binding site [ion binding]; metal-binding site 491077000303 drug efflux system protein MdtG; Provisional; Region: PRK09874 491077000304 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 491077000305 putative substrate translocation pore; other site 491077000306 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 491077000307 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 491077000308 S-adenosylmethionine binding site [chemical binding]; other site 491077000309 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...; Region: URO-D_CIMS_like; cl00464 491077000310 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077000311 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077000312 Probable transposase; Region: OrfB_IS605; pfam01385 491077000313 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 491077000314 Transposase IS200 like; Region: Y1_Tnp; cl00848 491077000315 UbiA prenyltransferase family; Region: UbiA; cl00337 491077000316 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; COG1575 491077000317 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 491077000318 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 491077000319 substrate binding pocket [chemical binding]; other site 491077000320 chain length determination region; other site 491077000321 substrate-Mg2+ binding site; other site 491077000322 catalytic residues [active] 491077000323 aspartate-rich region 1; other site 491077000324 active site lid residues [active] 491077000325 aspartate-rich region 2; other site 491077000326 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 491077000327 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 491077000328 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 491077000329 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 491077000330 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 491077000331 putative transporter; Provisional; Region: PRK11462 491077000332 putative transporter; Provisional; Region: PRK11462 491077000333 PTS_IIA, PTS system, glucose/sucrose 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_glc; cl00162 491077000334 HPr interaction site; other site 491077000335 glycerol kinase (GK) interaction site [polypeptide binding]; other site 491077000336 active site 491077000337 phosphorylation site [posttranslational modification] 491077000338 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491077000339 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491077000340 DNA binding site [nucleotide binding] 491077000341 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 491077000342 putative dimerization interface [polypeptide binding]; other site 491077000343 putative ligand binding site [chemical binding]; other site 491077000344 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 491077000345 active site 491077000346 DNA binding site [nucleotide binding] 491077000347 putative phosphate binding site [ion binding]; other site 491077000348 putative catalytic site [active] 491077000349 metal binding site A [ion binding]; metal-binding site 491077000350 AP binding site [nucleotide binding]; other site 491077000351 metal binding site B [ion binding]; metal-binding site 491077000352 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 491077000353 Uncharacterised protein family (UPF0236); Region: UPF0236; pfam06782 491077000354 potential frameshift: common BLAST hit: gi|326803797|ref|YP_004321615.1| transposase, IS116/IS110/IS902 family 491077000355 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 491077000356 Transposase; Region: DEDD_Tnp_IS110; pfam01548 491077000357 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 491077000358 Uncharacterised protein family (UPF0236); Region: UPF0236; pfam06782 491077000359 potential frameshift: common BLAST hit: gi|148544374|ref|YP_001271744.1| amino acid permease-associated region 491077000360 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 491077000361 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 491077000362 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 491077000363 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 491077000364 RimM N-terminal domain; Region: RimM; pfam01782 491077000365 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 491077000366 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837; cl00794 491077000367 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 491077000368 signal recognition particle protein; Provisional; Region: PRK10867 491077000369 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 491077000370 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 491077000371 P loop; other site 491077000372 GTP binding site [chemical binding]; other site 491077000373 Signal peptide binding domain; Region: SRP_SPB; pfam02978 491077000374 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 491077000375 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 491077000376 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 491077000377 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 491077000378 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 491077000379 P loop; other site 491077000380 GTP binding site [chemical binding]; other site 491077000381 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 491077000382 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 491077000383 Walker A/P-loop; other site 491077000384 ATP binding site [chemical binding]; other site 491077000385 Q-loop/lid; other site 491077000386 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 491077000387 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 491077000388 ABC transporter signature motif; other site 491077000389 Walker B; other site 491077000390 D-loop; other site 491077000391 H-loop/switch region; other site 491077000392 ribonuclease III; Reviewed; Region: rnc; PRK00102 491077000393 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 post-...; Region: RIBOc; cd00593 491077000394 dimerization interface [polypeptide binding]; other site 491077000395 active site 491077000396 metal binding site [ion binding]; metal-binding site 491077000397 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...; Region: DSRM; cd00048 491077000398 dsRNA binding site [nucleotide binding]; other site 491077000399 Phosphopantetheine attachment site; Region: PP-binding; cl09936 491077000400 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 491077000401 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 491077000402 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a four-...; Region: RecG_wedge_OBF; cd04488 491077000403 generic binding surface II; other site 491077000404 ssDNA binding site; other site 491077000405 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 491077000406 ATP binding site [chemical binding]; other site 491077000407 putative Mg++ binding site [ion binding]; other site 491077000408 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 491077000409 nucleotide binding region [chemical binding]; other site 491077000410 ATP-binding site [chemical binding]; other site 491077000411 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 491077000412 DAK2 domain; Region: Dak2; cl03685 491077000413 Protein of unknown function (DUF322); Region: DUF322; cl00574 491077000414 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 491077000415 Thiamine pyrophosphokinase; Region: TPK; cd07995 491077000416 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 491077000417 active site 491077000418 dimerization interface [polypeptide binding]; other site 491077000419 thiamine binding site [chemical binding]; other site 491077000420 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 491077000421 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...; Region: RPE; cd00429 491077000422 substrate binding site [chemical binding]; other site 491077000423 hexamer interface [polypeptide binding]; other site 491077000424 metal binding site [ion binding]; metal-binding site 491077000425 GTPase RsgA; Reviewed; Region: PRK00098 491077000426 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...; Region: YjeQ_engC; cd01854 491077000427 GTPase/OB domain interface [polypeptide binding]; other site 491077000428 GTPase/Zn-binding domain interface [polypeptide binding]; other site 491077000429 GTP/Mg2+ binding site [chemical binding]; other site 491077000430 G4 box; other site 491077000431 G5 box; other site 491077000432 G1 box; other site 491077000433 Switch I region; other site 491077000434 G2 box; other site 491077000435 G3 box; other site 491077000436 Switch II region; other site 491077000437 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 491077000438 Catalytic domain of Protein Kinases; Region: PKc; cd00180 491077000439 active site 491077000440 ATP binding site [chemical binding]; other site 491077000441 substrate binding site [chemical binding]; other site 491077000442 activation loop (A-loop); other site 491077000443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 491077000444 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis...; Region: PASTA_pknB; cd06577 491077000445 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis...; Region: PASTA_pknB; cd06577 491077000446 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 491077000447 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 491077000448 Active site [active] 491077000449 16S rRNA methyltransferase B; Provisional; Region: PRK14902 491077000450 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 rRNA-...; Region: NusB_Sun; cl00223 491077000451 putative RNA binding site [nucleotide binding]; other site 491077000452 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 491077000453 S-adenosylmethionine binding site [chemical binding]; other site 491077000454 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 491077000455 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 491077000456 putative active site [active] 491077000457 substrate binding site [chemical binding]; other site 491077000458 putative cosubstrate binding site; other site 491077000459 catalytic site [active] 491077000460 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 491077000461 substrate binding site [chemical binding]; other site 491077000462 primosome assembly protein PriA; Validated; Region: PRK05580 491077000463 primosome assembly protein PriA; Validated; Region: PRK05580 491077000464 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 491077000465 ATP binding site [chemical binding]; other site 491077000466 putative Mg++ binding site [ion binding]; other site 491077000467 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077000468 Flavoprotein; Region: Flavoprotein; cl08021 491077000469 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 491077000470 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 491077000471 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 491077000472 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...; Region: GMPK; cd00071 491077000473 catalytic site [active] 491077000474 G-X2-G-X-G-K; other site 491077000475 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 491077000476 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...; Region: ABC_RecN; cd03241 491077000477 Walker A/P-loop; other site 491077000478 ATP binding site [chemical binding]; other site 491077000479 Q-loop/lid; other site 491077000480 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...; Region: ABC_RecN; cd03241 491077000481 ABC transporter signature motif; other site 491077000482 Walker B; other site 491077000483 D-loop; other site 491077000484 H-loop/switch region; other site 491077000485 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 491077000486 arginine repressor; Provisional; Region: PRK04280 491077000487 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 491077000488 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 491077000489 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 491077000490 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 491077000491 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 491077000492 substrate binding pocket [chemical binding]; other site 491077000493 chain length determination region; other site 491077000494 substrate-Mg2+ binding site; other site 491077000495 catalytic residues [active] 491077000496 aspartate-rich region 1; other site 491077000497 active site lid residues [active] 491077000498 aspartate-rich region 2; other site 491077000499 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 491077000500 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 491077000501 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 single-strand-...; Region: ExoVII_LU_OBF; cd04489 491077000502 generic binding surface II; other site 491077000503 generic binding surface I; other site 491077000504 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 491077000505 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 491077000506 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 491077000507 homodimer interface [polypeptide binding]; other site 491077000508 NADP binding site [chemical binding]; other site 491077000509 substrate binding site [chemical binding]; other site 491077000510 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 rRNA-...; Region: NusB_Sun; cl00223 491077000511 Protein of unknown function (DUF322); Region: DUF322; cl00574 491077000512 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 491077000513 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 491077000514 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 491077000515 active site 491077000516 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 491077000517 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 491077000518 catalytic residue [active] 491077000519 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 491077000520 Protein of unknown function (DUF464); Region: DUF464; cl01080 491077000521 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 491077000522 Transposase; Region: DEDD_Tnp_IS110; pfam01548 491077000523 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 491077000524 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 491077000525 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 491077000526 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491077000527 Domain of unknown function DUF59; Region: DUF59; cl00941 491077000528 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 491077000529 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 491077000530 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000531 potential frameshift: common BLAST hit: gi|148544424|ref|YP_001271794.1| aminotransferase 491077000532 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 491077000533 homodimer interface [polypeptide binding]; other site 491077000534 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077000535 catalytic residue [active] 491077000536 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 491077000537 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 491077000538 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 491077000539 active site 491077000540 HIGH motif; other site 491077000541 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 491077000542 active site 491077000543 KMSKS motif; other site 491077000544 glutamine synthetase, type I; Region: GlnA; TIGR00653 491077000545 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 491077000546 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 491077000547 IPP transferase; Region: IPPT; cl00403 491077000548 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 491077000549 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 491077000550 active site residue [active] 491077000551 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 491077000552 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 491077000553 Bacterial protein of unknown function (DUF910); Region: DUF910; cl11543 491077000554 Rhomboid family; Region: Rhomboid; cl11446 491077000555 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 491077000556 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 491077000557 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 491077000558 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 491077000559 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 491077000560 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 491077000561 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 491077000562 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000563 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077000564 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077000565 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 491077000566 domain; Region: GreA_GreB_N; pfam03449 491077000567 C-term; Region: GreA_GreB; pfam01272 491077000568 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...; Region: UMPK; cd02023 491077000569 Sugar specificity; other site 491077000570 Pyrimidine base specificity; other site 491077000571 ATP-binding site [chemical binding]; other site 491077000572 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 491077000573 putative peptidoglycan binding site; other site 491077000574 NlpC/P60 family; Region: NLPC_P60; cl11438 491077000575 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 491077000576 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 491077000577 putative tRNA-binding site [nucleotide binding]; other site 491077000578 B3/4 domain; Region: B3_4; cl11458 491077000579 tRNA synthetase B5 domain; Region: B5; cl08394 491077000580 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 491077000581 dimer interface [polypeptide binding]; other site 491077000582 motif 1; other site 491077000583 motif 3; other site 491077000584 motif 2; other site 491077000585 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 491077000586 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 491077000587 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 491077000588 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 491077000589 dimer interface [polypeptide binding]; other site 491077000590 motif 1; other site 491077000591 active site 491077000592 motif 2; other site 491077000593 motif 3; other site 491077000594 T-box leader; HMPREF0538_nc20006 491077000595 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077000596 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 491077000597 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 491077000598 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 491077000599 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 491077000600 Acylphosphatase; Region: Acylphosphatase; cl00551 491077000601 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 491077000602 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(...; Region: Pep_deformylase; cd00487 491077000603 active site 491077000604 catalytic residues [active] 491077000605 metal binding site [ion binding]; metal-binding site 491077000606 MatE; Region: MatE; cl10513 491077000607 MatE; Region: MatE; cl10513 491077000608 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 491077000609 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 491077000610 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 491077000611 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 connected by an extended linker. The...; Region: HAMP; cl01054 491077000612 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 trans-...; Region: HisKA; cd00082 491077000613 dimer interface [polypeptide binding]; other site 491077000614 phosphorylation site [posttranslational modification] 491077000615 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 491077000616 ATP binding site [chemical binding]; other site 491077000617 Mg2+ binding site [ion binding]; other site 491077000618 G-X-G motif; other site 491077000619 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491077000620 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 491077000621 active site 491077000622 phosphorylation site [posttranslational modification] 491077000623 intermolecular recognition site; other site 491077000624 dimerization interface [polypeptide binding]; other site 491077000625 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...; Region: trans_reg_C; cd00383 491077000626 DNA binding site [nucleotide binding] 491077000627 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000628 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 491077000629 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 491077000630 hypothetical protein; Provisional; Region: PRK13670 491077000631 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 491077000632 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 491077000633 S-adenosylmethionine binding site [chemical binding]; other site 491077000634 Domain of unknown function DUF143; Region: DUF143; cl00519 491077000635 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 491077000636 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 491077000637 Zn2+ binding site [ion binding]; other site 491077000638 Mg2+ binding site [ion binding]; other site 491077000639 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 491077000640 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 491077000641 active site 491077000642 (T/H)XGH motif; other site 491077000643 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 491077000644 GTPase YqeH; Provisional; Region: PRK13796 491077000645 YqeH. YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically...; Region: YqeH; cd01855 491077000646 GTP/Mg2+ binding site [chemical binding]; other site 491077000647 G4 box; other site 491077000648 G5 box; other site 491077000649 G1 box; other site 491077000650 Switch I region; other site 491077000651 G2 box; other site 491077000652 G3 box; other site 491077000653 Switch II region; other site 491077000654 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 491077000655 active site 491077000656 motif I; other site 491077000657 motif II; other site 491077000658 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 491077000659 23S rRNA binding site [nucleotide binding]; other site 491077000660 L21 binding site [polypeptide binding]; other site 491077000661 L13 binding site [polypeptide binding]; other site 491077000662 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 491077000663 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 491077000664 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 491077000665 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 491077000666 Ribosomal protein L20 leader; HMPREF0538_nc20007 491077000667 primosomal protein DnaI; Reviewed; Region: PRK08939 491077000668 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 491077000669 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...; Region: AAA; cd00009 491077000670 Walker A motif; other site 491077000671 ATP binding site [chemical binding]; other site 491077000672 Walker B motif; other site 491077000673 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 491077000674 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 491077000675 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 491077000676 ATP cone domain; Region: ATP-cone; pfam03477 491077000677 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 491077000678 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 491077000679 CoA-binding site [chemical binding]; other site 491077000680 ATP-binding [chemical binding]; other site 491077000681 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 491077000682 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 491077000683 DNA binding site [nucleotide binding] 491077000684 catalytic residue [active] 491077000685 H2TH interface [polypeptide binding]; other site 491077000686 putative catalytic residues [active] 491077000687 turnover-facilitating residue; other site 491077000688 intercalation triad [nucleotide binding]; other site 491077000689 8OG recognition residue [nucleotide binding]; other site 491077000690 putative reading head residues; other site 491077000691 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 491077000692 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 491077000693 DNA polymerase I; Provisional; Region: PRK05755 491077000694 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 491077000695 active site 491077000696 metal binding site 1 [ion binding]; metal-binding site 491077000697 putative 5' ssDNA interaction site; other site 491077000698 metal binding site 3; metal-binding site 491077000699 metal binding site 2 [ion binding]; metal-binding site 491077000700 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 491077000701 putative DNA binding site [nucleotide binding]; other site 491077000702 putative metal binding site [ion binding]; other site 491077000703 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 491077000704 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 491077000705 active site 491077000706 DNA binding site [nucleotide binding] 491077000707 catalytic site [active] 491077000708 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 491077000709 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000710 Integrase core domain; Region: rve; cl01316 491077000711 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 491077000712 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 491077000713 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 491077000714 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491077000715 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 491077000716 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 491077000717 putative tRNA-binding site [nucleotide binding]; other site 491077000718 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 491077000719 catalytic residues [active] 491077000720 Predicted small secreted protein [Function unknown]; Region: COG5584 491077000721 putative transposase OrfB; Reviewed; Region: PHA02517 491077000722 Integrase core domain; Region: rve; cl01316 491077000723 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 491077000724 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 491077000725 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 491077000726 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 491077000727 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 491077000728 Walker A/P-loop; other site 491077000729 ATP binding site [chemical binding]; other site 491077000730 Q-loop/lid; other site 491077000731 ABC transporter signature motif; other site 491077000732 Walker B; other site 491077000733 D-loop; other site 491077000734 H-loop/switch region; other site 491077000735 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life...; Region: HINT_subgroup; cd01277 491077000736 HIT family signature motif; other site 491077000737 catalytic residue [active] 491077000738 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077000739 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077000740 putative active site [active] 491077000741 putative NTP binding site [chemical binding]; other site 491077000742 putative nucleic acid binding site [nucleotide binding]; other site 491077000743 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077000744 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 491077000745 PPIC-type PPIASE domain; Region: Rotamase; cl08278 491077000746 Uncharacterized conserved protein [Function unknown]; Region: COG4717 491077000747 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077000748 Walker A/P-loop; other site 491077000749 ATP binding site [chemical binding]; other site 491077000750 Uncharacterized conserved protein [Function unknown]; Region: COG4717 491077000751 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 491077000752 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 491077000753 active site 491077000754 metal binding site [ion binding]; metal-binding site 491077000755 DNA binding site [nucleotide binding] 491077000756 exonuclease subunit SbcD; Provisional; Region: PRK10966 491077000757 Protein of unknown function (DUF964); Region: DUF964; cl01483 491077000758 Transglycosylase; Region: Transgly; cl07896 491077000759 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 491077000760 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 491077000761 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 491077000762 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 491077000763 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 491077000764 active site 491077000765 HIGH motif; other site 491077000766 KMSK motif region; other site 491077000767 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 491077000768 tRNA binding surface [nucleotide binding]; other site 491077000769 anticodon binding site; other site 491077000770 T-box leader; HMPREF0538_nc20009 491077000771 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000772 Integrase core domain; Region: rve; cl01316 491077000773 bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed; Region: PRK06427 491077000774 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 491077000775 dimer interface [polypeptide binding]; other site 491077000776 substrate binding site [chemical binding]; other site 491077000777 ATP binding site [chemical binding]; other site 491077000778 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 491077000779 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 491077000780 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491077000781 NAD binding site [chemical binding]; other site 491077000782 dimer interface [polypeptide binding]; other site 491077000783 substrate binding site [chemical binding]; other site 491077000784 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 491077000785 dihydropteroate synthase; Region: DHPS; TIGR01496 491077000786 substrate binding pocket [chemical binding]; other site 491077000787 dimer interface [polypeptide binding]; other site 491077000788 inhibitor binding site; inhibition site 491077000789 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 Ham1-...; Region: HAM1; cd00515 491077000790 active site 491077000791 dimerization interface [polypeptide binding]; other site 491077000792 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 491077000793 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491077000794 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 491077000795 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 491077000796 GTP cyclohydrolase I; Provisional; Region: PLN03044 491077000797 active site 491077000798 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 491077000799 catalytic center binding site [active] 491077000800 ATP binding site [chemical binding]; other site 491077000801 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 491077000802 active site 491077000803 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation...; Region: ASCH; cl01020 491077000804 Domain of unknown function (DUF74); Region: DUF74; cl00426 491077000805 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 491077000806 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 491077000807 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077000808 putative active site [active] 491077000809 putative NTP binding site [chemical binding]; other site 491077000810 putative nucleic acid binding site [nucleotide binding]; other site 491077000811 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077000812 pfkB family carbohydrate kinase; Region: PfkB; pfam00294 491077000813 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of...; Region: ribokinase; cd01174 491077000814 substrate binding site [chemical binding]; other site 491077000815 dimer interface [polypeptide binding]; other site 491077000816 ATP binding site [chemical binding]; other site 491077000817 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491077000818 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491077000819 DNA binding site [nucleotide binding] 491077000820 domain linker motif; other site 491077000821 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 491077000822 dimerization interface [polypeptide binding]; other site 491077000823 ligand binding site [chemical binding]; other site 491077000824 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 491077000825 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7...; Region: dNK; cd01673 491077000826 Substrate-binding site [chemical binding]; other site 491077000827 Substrate specificity [chemical binding]; other site 491077000828 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 491077000829 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 491077000830 Ligand Binding Site [chemical binding]; other site 491077000831 dipeptidase PepV; Reviewed; Region: PRK07318 491077000832 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 491077000833 active site 491077000834 metal binding site [ion binding]; metal-binding site 491077000835 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 491077000836 putative substrate binding site [chemical binding]; other site 491077000837 putative ATP binding site [chemical binding]; other site 491077000838 MatE; Region: MatE; cl10513 491077000839 stage V sporulation protein B; Region: spore_V_B; TIGR02900 491077000840 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 491077000841 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 491077000842 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 491077000843 HIGH motif; other site 491077000844 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 491077000845 active site 491077000846 KMSKS motif; other site 491077000847 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 491077000848 tRNA binding surface [nucleotide binding]; other site 491077000849 S-adenosylmethionine synthetase; Validated; Region: PRK05250 491077000850 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 491077000851 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 491077000852 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 491077000853 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 491077000854 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 491077000855 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491077000856 putative substrate translocation pore; other site 491077000857 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 491077000858 metal binding site 2 [ion binding]; metal-binding site 491077000859 putative DNA binding helix; other site 491077000860 metal binding site 1 [ion binding]; metal-binding site 491077000861 dimer interface [polypeptide binding]; other site 491077000862 structural Zn2+ binding site [ion binding]; other site 491077000863 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 491077000864 VanZ like family; Region: VanZ; cl01971 491077000865 DNA polymerase IV; Reviewed; Region: PRK03103 491077000866 Y-family of DNA polymerases; Region: PolY; cl12025 491077000867 active site 491077000868 DNA binding site [nucleotide binding] 491077000869 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 491077000870 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 491077000871 putative dimer interface [polypeptide binding]; other site 491077000872 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...; Region: Aldo_ket_red; cd06660 491077000873 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491077000874 active site 491077000875 catalytic tetrad [active] 491077000876 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 491077000877 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 491077000878 homodimer interface [polypeptide binding]; other site 491077000879 active site 491077000880 FMN binding site [chemical binding]; other site 491077000881 substrate binding site [chemical binding]; other site 491077000882 4Fe-4S binding domain; Region: Fer4; cl02805 491077000883 4Fe-4S binding domain; Region: Fer4; cl02805 491077000884 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 491077000885 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077000886 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 491077000887 putative metal binding site [ion binding]; other site 491077000888 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000889 Integrase core domain; Region: rve; cl01316 491077000890 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 491077000891 active site 491077000892 DNA binding site [nucleotide binding] 491077000893 AP binding site [nucleotide binding]; other site 491077000894 putative phosphate binding site [ion binding]; other site 491077000895 putative catalytic site [active] 491077000896 metal binding site B [ion binding]; metal-binding site 491077000897 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077000898 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077000899 putative active site [active] 491077000900 putative NTP binding site [chemical binding]; other site 491077000901 putative nucleic acid binding site [nucleotide binding]; other site 491077000902 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077000903 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 491077000904 putative peptidoglycan binding site; other site 491077000905 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_HprK; cl00270 491077000906 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000907 Integrase core domain; Region: rve; cl01316 491077000908 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 491077000909 putative peptidoglycan binding site; other site 491077000910 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 491077000911 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 491077000912 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; cl15259 491077000913 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 491077000914 ATP cone domain; Region: ATP-cone; pfam03477 491077000915 Class III ribonucleotide reductase; Region: RNR_III; cd01675 491077000916 effector binding site; other site 491077000917 active site 491077000918 Zn binding site [ion binding]; other site 491077000919 glycine loop; other site 491077000920 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000921 Integrase core domain; Region: rve; cl01316 491077000922 potential frameshift: common BLAST hit: gi|148544542|ref|YP_001271912.1| EmrB/QacA family drug resistance transporter 491077000923 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 491077000924 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 491077000925 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491077000926 Coenzyme A binding pocket [chemical binding]; other site 491077000927 Protein of unknown function (DUF1797); Region: DUF1797; cl11550 491077000928 Predicted integral membrane protein [Function unknown]; Region: COG0392 491077000929 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 491077000930 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 491077000931 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491077000932 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1,2-...; Region: GT1_UGDG_like; cd03817 491077000933 putative ADP-binding pocket [chemical binding]; other site 491077000934 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 491077000935 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 491077000936 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 491077000937 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 491077000938 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 491077000939 dimerization domain swap beta strand [polypeptide binding]; other site 491077000940 regulatory protein interface [polypeptide binding]; other site 491077000941 active site 491077000942 regulatory phosphorylation site [posttranslational modification]; other site 491077000943 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 491077000944 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...; Region: AAA; cd00009 491077000945 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 491077000946 Walker A motif; other site 491077000947 ATP binding site [chemical binding]; other site 491077000948 Walker B motif; other site 491077000949 arginine finger; other site 491077000950 Flagellar GTP-binding protein [Cell motility and secretion]; Region: FlhF; COG1419 491077000951 UvrB/uvrC motif; Region: UVR; pfam02151 491077000952 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...; Region: AAA; cd00009 491077000953 Walker A motif; other site 491077000954 ATP binding site [chemical binding]; other site 491077000955 Walker B motif; other site 491077000956 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 491077000957 Uncharacterised protein family (UPF0236); Region: UPF0236; pfam06782 491077000958 Uncharacterised protein family (UPF0236); Region: UPF0236; pfam06782 491077000959 Predicted membrane protein [Function unknown]; Region: COG4684 491077000960 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 491077000961 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000962 Integrase core domain; Region: rve; cl01316 491077000963 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 491077000964 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 491077000965 Walker A/P-loop; other site 491077000966 ATP binding site [chemical binding]; other site 491077000967 Q-loop/lid; other site 491077000968 ABC transporter signature motif; other site 491077000969 Walker B; other site 491077000970 D-loop; other site 491077000971 H-loop/switch region; other site 491077000972 Predicted transcriptional regulators [Transcription]; Region: COG1725 491077000973 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491077000974 DNA-binding site [nucleotide binding]; DNA binding site 491077000975 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077000976 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077000977 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 491077000978 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 491077000979 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 491077000980 MucBP domain; Region: MucBP; pfam06458 491077000981 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 491077000982 Peptidase family M23; Region: Peptidase_M23; pfam01551 491077000983 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 491077000984 NlpC/P60 family; Region: NLPC_P60; cl11438 491077000985 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 491077000986 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 491077000987 G1 box; other site 491077000988 putative GEF interaction site [polypeptide binding]; other site 491077000989 GTP/Mg2+ binding site [chemical binding]; other site 491077000990 Switch I region; other site 491077000991 G2 box; other site 491077000992 G3 box; other site 491077000993 Switch II region; other site 491077000994 G4 box; other site 491077000995 G5 box; other site 491077000996 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 491077000997 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000998 Integrase core domain; Region: rve; cl01316 491077000999 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 491077001000 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 491077001001 Domain of unknown function DUF20; Region: UPF0118; cl00465 491077001002 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 491077001003 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 491077001004 amidase catalytic site [active] 491077001005 Zn binding residues [ion binding]; other site 491077001006 substrate binding site [chemical binding]; other site 491077001007 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 491077001008 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 491077001009 NADP binding site [chemical binding]; other site 491077001010 active site 491077001011 putative substrate binding site [chemical binding]; other site 491077001012 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 491077001013 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 491077001014 NAD binding site [chemical binding]; other site 491077001015 substrate binding site [chemical binding]; other site 491077001016 homodimer interface [polypeptide binding]; other site 491077001017 active site 491077001018 Cupin domain; Region: Cupin_2; cl09118 491077001019 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 491077001020 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 491077001021 substrate binding site [chemical binding]; other site 491077001022 tetramer interface [polypeptide binding]; other site 491077001023 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 491077001024 Alg9-like mannosyltransferase family; Region: Glyco_transf_22; pfam03901 491077001025 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 491077001026 Ligand binding site [chemical binding]; other site 491077001027 Putative Catalytic site [active] 491077001028 DXD motif; other site 491077001029 Acyltransferase family; Region: Acyl_transf_3; pfam01757 491077001030 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 491077001031 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_b; cd04185 491077001032 Probable Catalytic site [active] 491077001033 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 491077001034 active site 491077001035 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 491077001036 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 491077001037 Probable Catalytic site [active] 491077001038 Chain length determinant protein; Region: Wzz; cl01623 491077001039 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 491077001040 MatE; Region: MatE; cl10513 491077001041 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 491077001042 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 491077001043 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077001044 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077001045 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The...; Region: Peptidase_C39_like; cl00296 491077001046 putative active site [active] 491077001047 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 491077001048 Peptidase family M23; Region: Peptidase_M23; pfam01551 491077001049 Bacterial sugar transferase; Region: Bac_transf; cl00939 491077001050 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 491077001051 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 491077001052 Ligand binding site [chemical binding]; other site 491077001053 Putative Catalytic site [active] 491077001054 DXD motif; other site 491077001055 RecX family; Region: RecX; cl00936 491077001056 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 491077001057 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 491077001058 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 491077001059 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 491077001060 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 491077001061 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 491077001062 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077001063 homodimer interface [polypeptide binding]; other site 491077001064 catalytic residue [active] 491077001065 methionine aminopeptidase; Reviewed; Region: PRK07281 491077001066 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 491077001067 active site 491077001068 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 491077001069 GtrA-like protein; Region: GtrA; cl00971 491077001070 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077001071 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077001072 Probable transposase; Region: OrfB_IS605; pfam01385 491077001073 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 491077001074 Transposase IS200 like; Region: Y1_Tnp; cl00848 491077001075 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 491077001076 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues...; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 491077001077 active site 491077001078 homodimer interface [polypeptide binding]; other site 491077001079 DEAD-like helicases superfamily; Region: DEXDc; smart00487 491077001080 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077001081 ATP binding site [chemical binding]; other site 491077001082 putative Mg++ binding site [ion binding]; other site 491077001083 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 491077001084 nucleotide binding region [chemical binding]; other site 491077001085 ATP-binding site [chemical binding]; other site 491077001086 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491077001087 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077001088 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 491077001089 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl11406 491077001090 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 491077001091 NAD(P) binding site [chemical binding]; other site 491077001092 LDH/MDH dimer interface [polypeptide binding]; other site 491077001093 substrate binding site [chemical binding]; other site 491077001094 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl01099 491077001095 Protein of unknown function (DUF3114); Region: DUF3114; pfam11311 491077001096 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 491077001097 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 491077001098 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 491077001099 LytTr DNA-binding domain; Region: LytTR; cl04498 491077001100 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 491077001101 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 491077001102 substrate binding site [chemical binding]; other site 491077001103 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 491077001104 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 491077001105 DNA binding site [nucleotide binding] 491077001106 active site 491077001107 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 491077001108 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 491077001109 FMN binding site [chemical binding]; other site 491077001110 glycerol-3-phosphate dehydrogenase; Provisional; Region: PTZ00345 491077001111 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 491077001112 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 491077001113 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077001114 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077001115 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 491077001116 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001117 Integrase core domain; Region: rve; cl01316 491077001118 Uncharacterised protein family (UPF0236); Region: UPF0236; pfam06782 491077001119 Isochorismatase family; Region: Isochorismatase; pfam00857 491077001120 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 491077001121 catalytic triad [active] 491077001122 conserved cis-peptide bond; other site 491077001123 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 491077001124 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...; Region: NAPRTase_A; cd01570 491077001125 active site 491077001126 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...; Region: Nudix_Hydrolase; cl00447 491077001127 nudix motif; other site 491077001128 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...; Region: Nudix_Hydrolase; cl00447 491077001129 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 491077001130 dimer interface [polypeptide binding]; other site 491077001131 catalytic triad [active] 491077001132 peroxidatic and resolving cysteines [active] 491077001133 Phage capsid family; Region: Phage_capsid; pfam05065 491077001134 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 491077001135 oligomerization interface [polypeptide binding]; other site 491077001136 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 491077001137 Holin family; Region: Phage_holin_4; cl01989 491077001138 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 491077001139 catalytic residues [active] 491077001140 catalytic nucleophile [active] 491077001141 hypothetical protein; Provisional; Region: PRK12705 491077001142 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 491077001143 catalytic residues [active] 491077001144 catalytic nucleophile [active] 491077001145 potential frameshift: common BLAST hit: gi|116630113|ref|YP_815285.1| site-specific recombinase, DNA invertase Pin related protein 491077001146 Recombinase; Region: Recombinase; pfam07508 491077001147 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 491077001148 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 491077001149 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 491077001150 putative uracil binding site [chemical binding]; other site 491077001151 putative active site [active] 491077001152 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 491077001153 ligand binding site [chemical binding]; other site 491077001154 flexible hinge region; other site 491077001155 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 491077001156 metal-binding site [ion binding] 491077001157 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 491077001158 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 491077001159 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; cl11391 491077001160 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001161 Integrase core domain; Region: rve; cl01316 491077001162 Low molecular weight phosphatase family; Region: LMWPc; cd00115 491077001163 Active site [active] 491077001164 potential frameshift: common BLAST hit: gi|184155516|ref|YP_001843856.1| helicase 491077001165 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 491077001166 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 491077001167 nucleotide binding region [chemical binding]; other site 491077001168 ATP-binding site [chemical binding]; other site 491077001169 Domain of unknown function (DUF389); Region: DUF389; cl00781 491077001170 potential frameshift: common BLAST hit: gi|148544848|ref|YP_001272218.1| major facilitator transporter 491077001171 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 491077001172 Protein of unknown function DUF262; Region: DUF262; cl14890 491077001173 Protein of unknown function DUF262; Region: DUF262; cl14890 491077001174 T5orf172 domain; Region: T5orf172; cl11176 491077001175 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 491077001176 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 491077001177 potential frameshift: common BLAST hit: gi|148544274|ref|YP_001271644.1| integrase catalytic subunit 491077001178 Integrase core domain; Region: rve; cl01316 491077001179 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 491077001180 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...; Region: AAA; cd00009 491077001181 Walker A motif; other site 491077001182 ATP binding site [chemical binding]; other site 491077001183 Walker B motif; other site 491077001184 arginine finger; other site 491077001185 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 491077001186 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 491077001187 Superfamily II helicase [General function prediction only]; Region: COG1204 491077001188 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077001189 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 491077001190 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 491077001191 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 491077001192 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 491077001193 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 491077001194 active site 491077001195 DNA binding site [nucleotide binding] 491077001196 catalytic site [active] 491077001197 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 491077001198 D5 N terminal like; Region: D5_N; cl07360 491077001199 C-terminal domain; Region: primase_Cterm; TIGR01613 491077001200 VRR-NUC domain; Region: VRR_NUC; cl08494 491077001201 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 491077001202 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 491077001203 ATP binding site [chemical binding]; other site 491077001204 putative Mg++ binding site [ion binding]; other site 491077001205 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...; Region: HNHc; cd00085 491077001206 active site 491077001207 Phage terminase, small subunit; Region: Terminase_4; cl01525 491077001208 ParB-like nuclease domain; Region: ParBc; cl02129 491077001209 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 491077001210 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001211 Integrase core domain; Region: rve; cl01316 491077001212 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 491077001213 Phage Terminase; Region: Terminase_1; pfam03354 491077001214 Phage portal protein; Region: Phage_portal; pfam04860 491077001215 Phage-related protein [Function unknown]; Region: COG4695; cl01923 491077001216 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 491077001217 oligomer interface [polypeptide binding]; other site 491077001218 active site residues [active] 491077001219 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 491077001220 Phage capsid family; Region: Phage_capsid; pfam05065 491077001221 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 491077001222 oligomerization interface [polypeptide binding]; other site 491077001223 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 491077001224 Holin family; Region: Phage_holin_4; cl01989 491077001225 potential frameshift: common BLAST hit: gi|116630110|ref|YP_815282.1| Lyzozyme M1 (1,4-beta-N-acetylmuramidase) 491077001226 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 491077001227 potential frameshift: common BLAST hit: gi|116630110|ref|YP_815282.1| Lyzozyme M1 (1,4-beta-N-acetylmuramidase) 491077001228 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 491077001229 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 491077001230 Cpl-7 lysozyme C-terminal domain; Region: Cpl-7; cl07020 491077001231 Cpl-7 lysozyme C-terminal domain; Region: Cpl-7; cl07020 491077001232 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077001233 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 491077001234 catalytic residues [active] 491077001235 catalytic nucleophile [active] 491077001236 Recombinase; Region: Recombinase; pfam07508 491077001237 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077001238 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 491077001239 catalytic residues [active] 491077001240 catalytic nucleophile [active] 491077001241 Recombinase; Region: Recombinase; pfam07508 491077001242 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 491077001243 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077001244 Walker A/P-loop; other site 491077001245 ATP binding site [chemical binding]; other site 491077001246 Q-loop/lid; other site 491077001247 ABC transporter signature motif; other site 491077001248 Walker B; other site 491077001249 D-loop; other site 491077001250 H-loop/switch region; other site 491077001251 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 491077001252 LytTr DNA-binding domain; Region: LytTR; cl04498 491077001253 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 491077001254 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 491077001255 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 491077001256 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 491077001257 ATP binding site [chemical binding]; other site 491077001258 putative Mg++ binding site [ion binding]; other site 491077001259 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 491077001260 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 491077001261 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 491077001262 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 491077001263 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 491077001264 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 491077001265 DNA binding site [nucleotide binding] 491077001266 Int/Topo IB signature motif; other site 491077001267 active site 491077001268 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 491077001269 HsdM N-terminal domain; Region: HsdM_N; pfam12161 491077001270 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 491077001271 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 491077001272 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 491077001273 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 491077001274 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077001275 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077001276 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 491077001277 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 491077001278 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 491077001279 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 491077001280 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 491077001281 active site 491077001282 DNA binding site [nucleotide binding] 491077001283 catalytic site [active] 491077001284 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 491077001285 D5 N terminal like; Region: D5_N; cl07360 491077001286 C-terminal domain; Region: primase_Cterm; TIGR01613 491077001287 VRR-NUC domain; Region: VRR_NUC; cl08494 491077001288 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 491077001289 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 491077001290 ATP binding site [chemical binding]; other site 491077001291 putative Mg++ binding site [ion binding]; other site 491077001292 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...; Region: HNHc; cd00085 491077001293 active site 491077001294 Phage terminase, small subunit; Region: Terminase_4; cl01525 491077001295 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 491077001296 ParB-like nuclease domain; Region: ParBc; cl02129 491077001297 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 491077001298 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 491077001299 Phage Terminase; Region: Terminase_1; pfam03354 491077001300 Phage-related protein [Function unknown]; Region: COG4695; cl01923 491077001301 Phage portal protein; Region: Phage_portal; pfam04860 491077001302 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 491077001303 oligomer interface [polypeptide binding]; other site 491077001304 active site residues [active] 491077001305 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 491077001306 Phage capsid family; Region: Phage_capsid; pfam05065 491077001307 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 491077001308 oligomerization interface [polypeptide binding]; other site 491077001309 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 491077001310 Holin family; Region: Phage_holin_4; cl01989 491077001311 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 491077001312 catalytic residues [active] 491077001313 catalytic nucleophile [active] 491077001314 Recombinase; Region: Recombinase; pfam07508 491077001315 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 491077001316 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077001317 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 491077001318 catalytic residues [active] 491077001319 catalytic nucleophile [active] 491077001320 Recombinase; Region: Recombinase; pfam07508 491077001321 TRAM domain; Region: TRAM; cl01282 491077001322 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 491077001323 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 491077001324 S-adenosylmethionine binding site [chemical binding]; other site 491077001325 putative lipid kinase; Reviewed; Region: PRK13055 491077001326 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 491077001327 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 491077001328 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 491077001329 GatB domain; Region: GatB_Yqey; cl11497 491077001330 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 491077001331 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 491077001332 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 491077001333 CamS sex pheromone cAM373 precursor; Region: CamS; cl11554 491077001334 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 491077001335 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 491077001336 nucleotide binding pocket [chemical binding]; other site 491077001337 K-X-D-G motif; other site 491077001338 catalytic site [active] 491077001339 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 491077001340 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 491077001341 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 491077001342 Dimer interface [polypeptide binding]; other site 491077001343 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 491077001344 UvrD/REP helicase; Region: UvrD-helicase; cl14126 491077001345 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 491077001346 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 491077001347 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 491077001348 acetoin reductase; Validated; Region: PRK08643 491077001349 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 491077001350 NAD binding site [chemical binding]; other site 491077001351 homotetramer interface [polypeptide binding]; other site 491077001352 homodimer interface [polypeptide binding]; other site 491077001353 active site 491077001354 substrate binding site [chemical binding]; other site 491077001355 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 491077001356 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 491077001357 23S rRNA interface [nucleotide binding]; other site 491077001358 L3 interface [polypeptide binding]; other site 491077001359 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 491077001360 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 491077001361 dimerization interface 3.5A [polypeptide binding]; other site 491077001362 active site 491077001363 Cobalt transport protein; Region: CbiQ; cl00463 491077001364 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 491077001365 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 491077001366 Walker A/P-loop; other site 491077001367 ATP binding site [chemical binding]; other site 491077001368 Q-loop/lid; other site 491077001369 ABC transporter signature motif; other site 491077001370 Walker B; other site 491077001371 D-loop; other site 491077001372 H-loop/switch region; other site 491077001373 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 491077001374 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 491077001375 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 491077001376 Walker A/P-loop; other site 491077001377 ATP binding site [chemical binding]; other site 491077001378 Q-loop/lid; other site 491077001379 ABC transporter signature motif; other site 491077001380 Walker B; other site 491077001381 D-loop; other site 491077001382 H-loop/switch region; other site 491077001383 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 491077001384 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 491077001385 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 491077001386 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 491077001387 alphaNTD homodimer interface [polypeptide binding]; other site 491077001388 alphaNTD - beta interaction site [polypeptide binding]; other site 491077001389 alphaNTD - beta' interaction site [polypeptide binding]; other site 491077001390 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 491077001391 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 491077001392 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 491077001393 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 491077001394 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 491077001395 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 491077001396 rRNA binding site [nucleotide binding]; other site 491077001397 predicted 30S ribosome binding site; other site 491077001398 adenylate kinase; Reviewed; Region: adk; PRK00279 491077001399 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 491077001400 AMP-binding site [chemical binding]; other site 491077001401 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 491077001402 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 491077001403 SecY translocase; Region: SecY; pfam00344 491077001404 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 491077001405 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins...; Region: Ribosomal_L30; cd01658 491077001406 23S rRNA binding site [nucleotide binding]; other site 491077001407 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 491077001408 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 491077001409 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 491077001410 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 491077001411 5S rRNA interface [nucleotide binding]; other site 491077001412 L27 interface [polypeptide binding]; other site 491077001413 23S rRNA interface [nucleotide binding]; other site 491077001414 L5 interface [polypeptide binding]; other site 491077001415 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 491077001416 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 491077001417 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 491077001418 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 491077001419 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 491077001420 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 491077001421 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 491077001422 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 491077001423 KOW motif; Region: KOW; cl00354 491077001424 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 491077001425 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 491077001426 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...; Region: Ribosomal_L29_HIP; cd00427 491077001427 23S rRNA interface [nucleotide binding]; other site 491077001428 putative translocon interaction site; other site 491077001429 signal recognition particle (SRP54) interaction site; other site 491077001430 L23 interface [polypeptide binding]; other site 491077001431 trigger factor interaction site; other site 491077001432 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 491077001433 23S rRNA interface [nucleotide binding]; other site 491077001434 5S rRNA interface [nucleotide binding]; other site 491077001435 putative antibiotic binding site [chemical binding]; other site 491077001436 L25 interface [polypeptide binding]; other site 491077001437 L27 interface [polypeptide binding]; other site 491077001438 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 491077001439 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...; Region: 30S_S3_KH; cd02412 491077001440 G-X-X-G motif; other site 491077001441 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 491077001442 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 491077001443 putative translocon binding site; other site 491077001444 protein-rRNA interface [nucleotide binding]; other site 491077001445 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 491077001446 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 491077001447 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 491077001448 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 491077001449 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 491077001450 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 491077001451 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 491077001452 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 491077001453 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001454 Integrase core domain; Region: rve; cl01316 491077001455 Transposase; Region: DEDD_Tnp_IS110; pfam01548 491077001456 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 491077001457 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 491077001458 Transposase domain (DUF772); Region: DUF772; cl12084 491077001459 C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional; Region: PRK14552 491077001460 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 491077001461 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 491077001462 elongation factor G; Reviewed; Region: PRK12739 491077001463 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...; Region: EF-G; cd01886 491077001464 G1 box; other site 491077001465 putative GEF interaction site [polypeptide binding]; other site 491077001466 GTP/Mg2+ binding site [chemical binding]; other site 491077001467 Switch I region; other site 491077001468 G2 box; other site 491077001469 G3 box; other site 491077001470 Switch II region; other site 491077001471 G4 box; other site 491077001472 G5 box; other site 491077001473 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...; Region: EFG_mtEFG_II; cd04088 491077001474 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...; Region: EFG_mtEFG1_IV; cd01434 491077001475 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...; Region: EFG_mtEFG_C; cd03713 491077001476 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 491077001477 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 491077001478 16S rRNA interaction site [nucleotide binding]; other site 491077001479 streptomycin interaction site [chemical binding]; other site 491077001480 23S rRNA interaction site [nucleotide binding]; other site 491077001481 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 491077001482 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 491077001483 Protein of unknown function (DUF998); Region: DUF998; cl01334 491077001484 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 491077001485 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 491077001486 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 491077001487 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 491077001488 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 491077001489 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 491077001490 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 491077001491 G-loop; other site 491077001492 DNA binding site [nucleotide binding] 491077001493 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 491077001494 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 491077001495 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 491077001496 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 491077001497 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 491077001498 RPB1 interaction site [polypeptide binding]; other site 491077001499 RPB12 interaction site [polypeptide binding]; other site 491077001500 RPB10 interaction site [polypeptide binding]; other site 491077001501 RPB11 interaction site [polypeptide binding]; other site 491077001502 RPB3 interaction site [polypeptide binding]; other site 491077001503 RPB12 interaction site [polypeptide binding]; other site 491077001504 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491077001505 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491077001506 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077001507 ABC transporter signature motif; other site 491077001508 Walker B; other site 491077001509 D-loop; other site 491077001510 H-loop/switch region; other site 491077001511 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 491077001512 Clp amino terminal domain; Region: Clp_N; pfam02861 491077001513 Clp amino terminal domain; Region: Clp_N; pfam02861 491077001514 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...; Region: AAA; cd00009 491077001515 Walker A motif; other site 491077001516 ATP binding site [chemical binding]; other site 491077001517 Walker B motif; other site 491077001518 arginine finger; other site 491077001519 UvrB/uvrC motif; Region: UVR; pfam02151 491077001520 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...; Region: AAA; cd00009 491077001521 Walker A motif; other site 491077001522 ATP binding site [chemical binding]; other site 491077001523 Walker B motif; other site 491077001524 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 491077001525 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 491077001526 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 491077001527 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 491077001528 NAD binding site [chemical binding]; other site 491077001529 substrate binding site [chemical binding]; other site 491077001530 catalytic Zn binding site [ion binding]; other site 491077001531 tetramer interface [polypeptide binding]; other site 491077001532 structural Zn binding site [ion binding]; other site 491077001533 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 491077001534 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077001535 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077001536 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001537 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077001538 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077001539 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001540 Integrase core domain; Region: rve; cl01316 491077001541 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 491077001542 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7...; Region: dNK; cd01673 491077001543 Substrate-binding site [chemical binding]; other site 491077001544 Substrate specificity [chemical binding]; other site 491077001545 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 491077001546 Amino acid permease; Region: AA_permease; pfam00324 491077001547 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 491077001548 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 491077001549 active site 491077001550 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 491077001551 Uncharacterized conserved protein [Function unknown]; Region: COG2966 491077001552 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 491077001553 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 491077001554 DNA-binding site [nucleotide binding]; DNA binding site 491077001555 RNA-binding motif; other site 491077001556 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 491077001557 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077001558 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 491077001559 FeoA domain; Region: FeoA; cl00838 491077001560 Cation efflux family; Region: Cation_efflux; cl00316 491077001561 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 491077001562 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 491077001563 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 491077001564 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 491077001565 Ligand Binding Site [chemical binding]; other site 491077001566 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491077001567 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 491077001568 Walker A/P-loop; other site 491077001569 ATP binding site [chemical binding]; other site 491077001570 Q-loop/lid; other site 491077001571 ABC transporter signature motif; other site 491077001572 Walker B; other site 491077001573 D-loop; other site 491077001574 H-loop/switch region; other site 491077001575 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 491077001576 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...; Region: PBPb; cd00134 491077001577 substrate binding pocket [chemical binding]; other site 491077001578 membrane-bound complex binding site; other site 491077001579 hinge residues; other site 491077001580 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491077001581 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...; Region: TM_PBP2; cd06261 491077001582 dimer interface [polypeptide binding]; other site 491077001583 conserved gate region; other site 491077001584 putative PBP binding loops; other site 491077001585 ABC-ATPase subunit interface; other site 491077001586 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...; Region: TM_PBP2; cd06261 491077001587 dimer interface [polypeptide binding]; other site 491077001588 conserved gate region; other site 491077001589 putative PBP binding loops; other site 491077001590 ABC-ATPase subunit interface; other site 491077001591 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 491077001592 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 491077001593 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 491077001594 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 491077001595 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 491077001596 DNA binding residues [nucleotide binding] 491077001597 putative dimer interface [polypeptide binding]; other site 491077001598 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 491077001599 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 491077001600 putative substrate translocation pore; other site 491077001601 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 491077001602 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001603 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 491077001604 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...; Region: PseudoU_synth_RluCD_like; cd02869 491077001605 active site 491077001606 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077001607 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077001608 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001609 Integrase core domain; Region: rve; cl01316 491077001610 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 491077001611 Uncharacterized conserved protein [Function unknown]; Region: COG2898 491077001612 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 491077001613 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 491077001614 conserved cys residue [active] 491077001615 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 491077001616 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 491077001617 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 491077001618 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491077001619 putative substrate translocation pore; other site 491077001620 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 491077001621 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 491077001622 Fe-S cluster binding site [ion binding]; other site 491077001623 active site 491077001624 Uncharacterized conserved protein [Function unknown]; Region: COG2966 491077001625 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 491077001626 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 491077001627 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491077001628 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077001629 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 491077001630 dimerization interface [polypeptide binding]; other site 491077001631 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491077001632 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 491077001633 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 491077001634 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 491077001635 citrate lyase, alpha subunit; Region: citF; TIGR01584 491077001636 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 491077001637 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 491077001638 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 491077001639 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 491077001640 active site 491077001641 nucleotide binding site [chemical binding]; other site 491077001642 HIGH motif; other site 491077001643 KMSKS motif; other site 491077001644 Malic enzyme, N-terminal domain; Region: malic; pfam00390 491077001645 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077001646 NAD(P) binding pocket [chemical binding]; other site 491077001647 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 491077001648 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 491077001649 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 491077001650 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 491077001651 transmembrane helices; other site 491077001652 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 491077001653 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 491077001654 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491077001655 NAD binding site [chemical binding]; other site 491077001656 dimer interface [polypeptide binding]; other site 491077001657 substrate binding site [chemical binding]; other site 491077001658 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077001659 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 491077001660 fumarate hydratase; Reviewed; Region: fumC; PRK00485 491077001661 Class II fumarases; Region: Fumarase_classII; cd01362 491077001662 active site 491077001663 tetramer interface [polypeptide binding]; other site 491077001664 malate dehydrogenase; Provisional; Region: PRK13529 491077001665 Malic enzyme, N-terminal domain; Region: malic; pfam00390 491077001666 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 491077001667 NAD(P) binding site [chemical binding]; other site 491077001668 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491077001669 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077001670 The substrate binding domain of LysR-type transcriptional regulator MleR which required for malolactic fermentation, contains type 2 periplasmic binidning fold; Region: PBP2_MleR; cd08437 491077001671 putative dimerization interface [polypeptide binding]; other site 491077001672 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 491077001673 active site 491077001674 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 491077001675 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_2; TIGR02822 491077001676 putative NAD(P) binding site [chemical binding]; other site 491077001677 putative substrate binding site [chemical binding]; other site 491077001678 catalytic Zn binding site [ion binding]; other site 491077001679 structural Zn binding site [ion binding]; other site 491077001680 potential frameshift: common BLAST hit: gi|148544748|ref|YP_001272118.1| plasmid pRiA4b ORF-3 family protein 491077001681 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 491077001682 potential frameshift: common BLAST hit: gi|148544748|ref|YP_001272118.1| plasmid pRiA4b ORF-3 family protein 491077001683 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077001684 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077001685 Probable transposase; Region: OrfB_IS605; pfam01385 491077001686 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 491077001687 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 491077001688 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 491077001689 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 491077001690 active site 491077001691 catalytic residues [active] 491077001692 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077001693 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077001694 putative active site [active] 491077001695 putative NTP binding site [chemical binding]; other site 491077001696 putative nucleic acid binding site [nucleotide binding]; other site 491077001697 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077001698 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 491077001699 Beta-lactamase; Region: Beta-lactamase; cl01009 491077001700 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 491077001701 Beta-lactamase; Region: Beta-lactamase; cl01009 491077001702 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077001703 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077001704 putative active site [active] 491077001705 putative NTP binding site [chemical binding]; other site 491077001706 putative nucleic acid binding site [nucleotide binding]; other site 491077001707 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077001708 sucrose phosphorylase; Provisional; Region: PRK13840 491077001709 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 491077001710 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 491077001711 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491077001712 putative substrate translocation pore; other site 491077001713 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 491077001714 hypothetical protein; Provisional; Region: PRK07205 491077001715 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 491077001716 active site 491077001717 metal binding site [ion binding]; metal-binding site 491077001718 potential frameshift: common BLAST hit: gi|148544757|ref|YP_001272127.1| C4-dicarboxylate anaerobic carrier 491077001719 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; cl09110 491077001720 Predicted membrane protein [Function unknown]; Region: COG1288 491077001721 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077001722 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077001723 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001724 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; cl09110 491077001725 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 491077001726 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 491077001727 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077001728 Q-loop/lid; other site 491077001729 ABC transporter signature motif; other site 491077001730 Walker B; other site 491077001731 D-loop; other site 491077001732 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 491077001733 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...; Region: ABCF_EF-3; cd03221 491077001734 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 491077001735 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 491077001736 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 491077001737 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 491077001738 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 491077001739 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 491077001740 dimer interface [polypeptide binding]; other site 491077001741 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077001742 catalytic residue [active] 491077001743 Ferrochelatase; Region: Ferrochelatase; pfam00762 491077001744 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 491077001745 C-terminal domain interface [polypeptide binding]; other site 491077001746 active site 491077001747 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 491077001748 active site 491077001749 N-terminal domain interface [polypeptide binding]; other site 491077001750 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 491077001751 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 491077001752 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 491077001753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077001754 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; cl09110 491077001755 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 491077001756 Cation transport protein; Region: TrkH; cl10514 491077001757 Myosin-crossreactive antigen [Function unknown]; Region: COG4716 491077001758 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl01939 491077001759 Transposase; Region: DEDD_Tnp_IS110; pfam01548 491077001760 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 491077001761 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 491077001762 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077001763 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077001764 putative active site [active] 491077001765 putative NTP binding site [chemical binding]; other site 491077001766 putative nucleic acid binding site [nucleotide binding]; other site 491077001767 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077001768 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH...; Region: NfsA_FRP; cd02146 491077001769 dimer interface [polypeptide binding]; other site 491077001770 FMN binding site [chemical binding]; other site 491077001771 NADPH bind site [chemical binding]; other site 491077001772 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 491077001773 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 491077001774 DXD motif; other site 491077001775 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077001776 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077001777 putative active site [active] 491077001778 putative NTP binding site [chemical binding]; other site 491077001779 putative nucleic acid binding site [nucleotide binding]; other site 491077001780 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077001781 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 491077001782 PhoU domain; Region: PhoU; pfam01895 491077001783 PhoU domain; Region: PhoU; pfam01895 491077001784 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 491077001785 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 491077001786 Walker A/P-loop; other site 491077001787 ATP binding site [chemical binding]; other site 491077001788 Q-loop/lid; other site 491077001789 ABC transporter signature motif; other site 491077001790 Walker B; other site 491077001791 D-loop; other site 491077001792 H-loop/switch region; other site 491077001793 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...; Region: TM_PBP2; cd06261 491077001794 dimer interface [polypeptide binding]; other site 491077001795 conserved gate region; other site 491077001796 putative PBP binding loops; other site 491077001797 ABC-ATPase subunit interface; other site 491077001798 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 491077001799 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...; Region: TM_PBP2; cd06261 491077001800 dimer interface [polypeptide binding]; other site 491077001801 conserved gate region; other site 491077001802 putative PBP binding loops; other site 491077001803 ABC-ATPase subunit interface; other site 491077001804 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 491077001805 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491077001806 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...; Region: trans_reg_C; cd00383 491077001807 DNA binding site [nucleotide binding] 491077001808 potential frameshift: common BLAST hit: gi|184199645|ref|YP_001856232.1| IS30 family transposase 491077001809 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001810 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001811 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077001812 putative active site [active] 491077001813 putative nucleic acid binding site [nucleotide binding]; other site 491077001814 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077001815 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001816 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077001817 potential frameshift: common BLAST hit: gi|148543586|ref|YP_001270956.1| transposase, IS4 family protein 491077001818 Transposase domain (DUF772); Region: DUF772; cl12084 491077001819 potential frameshift: common BLAST hit: gi|148543586|ref|YP_001270956.1| transposase, IS4 family protein 491077001820 potential frameshift: common BLAST hit: gi|148543586|ref|YP_001270956.1| transposase, IS4 family protein 491077001821 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 491077001822 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 491077001823 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 491077001824 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 491077001825 Low molecular weight phosphatase family; Region: LMWPc; cd00115 491077001826 Active site [active] 491077001827 putative transposase OrfB; Reviewed; Region: PHA02517 491077001828 Integrase core domain; Region: rve; cl01316 491077001829 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077001830 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077001831 elongation factor P; Validated; Region: PRK00529 491077001832 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 491077001833 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 491077001834 RNA binding site [nucleotide binding]; other site 491077001835 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 491077001836 RNA binding site [nucleotide binding]; other site 491077001837 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 491077001838 Transposase IS200 like; Region: Y1_Tnp; cl00848 491077001839 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001840 Integrase core domain; Region: rve; cl01316 491077001841 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 491077001842 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 491077001843 T-box leader; HMPREF0538_nc20018 491077001844 Zinc-dependent metalloprotease, MMP_like subfamily. This group contains matrix metalloproteinases (MMPs), serralysins, and the astacin_like family of proteases; Region: ZnMc_MMP_like; cd04268 491077001845 active site 491077001846 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077001847 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 491077001848 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001849 Sodium:solute symporter family; Region: SSF; cl00456 491077001850 Sodium:solute symporter family; Region: SSF; cl00456 491077001851 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077001852 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077001853 Probable transposase; Region: OrfB_IS605; pfam01385 491077001854 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 491077001855 Transposase IS200 like; Region: Y1_Tnp; cl00848 491077001856 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 491077001857 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 491077001858 potential frameshift: common BLAST hit: gi|148544807|ref|YP_001272177.1| GCN5-related N-acetyltransferase 491077001859 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077001860 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077001861 Probable transposase; Region: OrfB_IS605; pfam01385 491077001862 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 491077001863 Transposase IS200 like; Region: Y1_Tnp; cl00848 491077001864 Protein of unknown function (DUF436); Region: DUF436; cl01860 491077001865 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 491077001866 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 491077001867 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 491077001868 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 491077001869 putative substrate translocation pore; other site 491077001870 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 491077001871 Phage integrase family; Region: Phage_integrase; pfam00589 491077001872 Int/Topo IB signature motif; other site 491077001873 Domain of unknown function (DUF3173); Region: DUF3173; pfam11372 491077001874 Phage associated DNA primase [General function prediction only]; Region: COG3378 491077001875 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077001876 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 491077001877 catalytic residues [active] 491077001878 catalytic nucleophile [active] 491077001879 Presynaptic Site I dimer interface [polypeptide binding]; other site 491077001880 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 491077001881 Synaptic Flat tetramer interface [polypeptide binding]; other site 491077001882 Synaptic Site I dimer interface [polypeptide binding]; other site 491077001883 DNA binding site [nucleotide binding] 491077001884 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077001885 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001886 Integrase core domain; Region: rve; cl01316 491077001887 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001888 Integrase core domain; Region: rve; cl01316 491077001889 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 491077001890 Glycosyl hydrolase family 70; Region: Glyco_hydro_70; pfam02324 491077001891 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 491077001892 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 491077001893 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077001894 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077001895 putative active site [active] 491077001896 putative NTP binding site [chemical binding]; other site 491077001897 putative nucleic acid binding site [nucleotide binding]; other site 491077001898 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077001899 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 491077001900 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 491077001901 Int/Topo IB signature motif; other site 491077001902 Domain of unknown function (DUF3173); Region: DUF3173; pfam11372 491077001903 Rib/alpha-like repeat; Region: Rib; cl07159 491077001904 Rib/alpha-like repeat; Region: Rib; cl07159 491077001905 Rib/alpha-like repeat; Region: Rib; cl07159 491077001906 Rib/alpha-like repeat; Region: Rib; cl07159 491077001907 Rib/alpha-like repeat; Region: Rib; cl07159 491077001908 T-complex protein 10 C-terminus; Region: Tcp10_C; pfam07202 491077001909 unresolvable tandem repeat 491077001910 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 491077001911 Rib/alpha-like repeat; Region: Rib; cl07159 491077001912 Rib/alpha-like repeat; Region: Rib; cl07159 491077001913 Rib/alpha-like repeat; Region: Rib; cl07159 491077001914 potential frameshift: common BLAST hit: gi|315037981|ref|YP_004031549.1| transposase IS66 491077001915 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 491077001916 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 491077001917 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001918 Integrase core domain; Region: rve; cl01316 491077001919 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 491077001920 GMP synthase; Reviewed; Region: guaA; PRK00074 491077001921 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 491077001922 AMP/PPi binding site [chemical binding]; other site 491077001923 candidate oxyanion hole; other site 491077001924 catalytic triad [active] 491077001925 potential glutamine specificity residues [chemical binding]; other site 491077001926 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 491077001927 ATP Binding subdomain [chemical binding]; other site 491077001928 Ligand Binding sites [chemical binding]; other site 491077001929 Dimerization subdomain; other site 491077001930 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 491077001931 pantothenate kinase; Provisional; Region: PRK05439 491077001932 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in...; Region: PanK; cd02025 491077001933 ATP-binding site [chemical binding]; other site 491077001934 CoA-binding site [chemical binding]; other site 491077001935 Mg2+-binding site [ion binding]; other site 491077001936 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 491077001937 Sulfatase; Region: Sulfatase; cl10460 491077001938 EamA-like transporter family; Region: EamA; cl01037 491077001939 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 491077001940 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 491077001941 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 491077001942 UvrD/REP helicase; Region: UvrD-helicase; cl14126 491077001943 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 491077001944 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 491077001945 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 491077001946 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 491077001947 catalytic core [active] 491077001948 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 491077001949 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 491077001950 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 491077001951 G1 box; other site 491077001952 GTP/Mg2+ binding site [chemical binding]; other site 491077001953 Switch I region; other site 491077001954 G2 box; other site 491077001955 G3 box; other site 491077001956 Switch II region; other site 491077001957 G4 box; other site 491077001958 G5 box; other site 491077001959 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 491077001960 D-lactate dehydrogenase; Validated; Region: PRK08605 491077001961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077001962 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 491077001963 Predicted membrane protein [Function unknown]; Region: COG1511 491077001964 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 491077001965 ABC-2 type transporter; Region: ABC2_membrane; cl11417 491077001966 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491077001967 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491077001968 PspC domain; Region: PspC; cl00864 491077001969 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 491077001970 metal binding site 2 [ion binding]; metal-binding site 491077001971 putative DNA binding helix; other site 491077001972 metal binding site 1 [ion binding]; metal-binding site 491077001973 dimer interface [polypeptide binding]; other site 491077001974 structural Zn2+ binding site [ion binding]; other site 491077001975 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...; Region: GMPK; cd00071 491077001976 catalytic site [active] 491077001977 G-X2-G-X-G-K; other site 491077001978 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 491077001979 active site 491077001980 Ap4A binding cleft/pocket [chemical binding]; other site 491077001981 P4 phosphate binding site; other site 491077001982 nudix motif; other site 491077001983 putative P2/P3 phosphate binding site [ion binding]; other site 491077001984 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 491077001985 cation transport protein; Region: 2A0119; TIGR00898 491077001986 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 491077001987 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077001988 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077001989 Probable transposase; Region: OrfB_IS605; pfam01385 491077001990 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 491077001991 Transposase IS200 like; Region: Y1_Tnp; cl00848 491077001992 Uncharacterised protein family (UPF0236); Region: UPF0236; pfam06782 491077001993 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 491077001994 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 491077001995 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491077001996 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...; Region: TM_PBP2; cd06261 491077001997 dimer interface [polypeptide binding]; other site 491077001998 conserved gate region; other site 491077001999 putative PBP binding loops; other site 491077002000 ABC-ATPase subunit interface; other site 491077002001 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 491077002002 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...; Region: TM_PBP2; cd06261 491077002003 dimer interface [polypeptide binding]; other site 491077002004 conserved gate region; other site 491077002005 putative PBP binding loops; other site 491077002006 ABC-ATPase subunit interface; other site 491077002007 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 491077002008 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues...; Region: ABC_PotA_N; cd03300 491077002009 Walker A/P-loop; other site 491077002010 ATP binding site [chemical binding]; other site 491077002011 Q-loop/lid; other site 491077002012 ABC transporter signature motif; other site 491077002013 Walker B; other site 491077002014 D-loop; other site 491077002015 H-loop/switch region; other site 491077002016 TOBE domain; Region: TOBE_2; cl01440 491077002017 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077002018 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077002019 Probable transposase; Region: OrfB_IS605; pfam01385 491077002020 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 491077002021 Transposase IS200 like; Region: Y1_Tnp; cl00848 491077002022 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 491077002023 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; cl07696 491077002024 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 491077002025 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 491077002026 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 491077002027 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 491077002028 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 491077002029 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; cl11391 491077002030 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 491077002031 Ferritin-like domain; Region: Ferritin; pfam00210 491077002032 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 491077002033 dimerization interface [polypeptide binding]; other site 491077002034 DPS ferroxidase diiron center [ion binding]; other site 491077002035 ion pore; other site 491077002036 potential frameshift: common BLAST hit: gi|148544858|ref|YP_001272228.1| amino acid permease-associated region 491077002037 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 491077002038 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 491077002039 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 491077002040 motif II; other site 491077002041 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 491077002042 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 491077002043 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077002044 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077002045 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base...; Region: nuc_hydro_CaPnhB; cd02650 491077002046 active site 491077002047 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077002048 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077002049 Probable transposase; Region: OrfB_IS605; pfam01385 491077002050 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 491077002051 Transposase IS200 like; Region: Y1_Tnp; cl00848 491077002052 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077002053 NAD(P) binding site [chemical binding]; other site 491077002054 active site 491077002055 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 491077002056 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 491077002057 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 491077002058 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 491077002059 Walker A/P-loop; other site 491077002060 ATP binding site [chemical binding]; other site 491077002061 Q-loop/lid; other site 491077002062 ABC transporter signature motif; other site 491077002063 Walker B; other site 491077002064 D-loop; other site 491077002065 H-loop/switch region; other site 491077002066 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 491077002067 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 491077002068 Walker A/P-loop; other site 491077002069 ATP binding site [chemical binding]; other site 491077002070 Q-loop/lid; other site 491077002071 ABC transporter signature motif; other site 491077002072 Walker B; other site 491077002073 D-loop; other site 491077002074 H-loop/switch region; other site 491077002075 Cobalt transport protein; Region: CbiQ; cl00463 491077002076 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 491077002077 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 491077002078 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 491077002079 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 491077002080 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491077002081 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 491077002082 non-specific DNA binding site [nucleotide binding]; other site 491077002083 salt bridge; other site 491077002084 sequence-specific DNA binding site [nucleotide binding]; other site 491077002085 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 491077002086 NAD(P) binding site [chemical binding]; other site 491077002087 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 491077002088 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 491077002089 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 491077002090 putative substrate translocation pore; other site 491077002091 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491077002092 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 491077002093 non-specific DNA binding site [nucleotide binding]; other site 491077002094 salt bridge; other site 491077002095 sequence-specific DNA binding site [nucleotide binding]; other site 491077002096 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 491077002097 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077002098 Walker A/P-loop; other site 491077002099 ATP binding site [chemical binding]; other site 491077002100 Q-loop/lid; other site 491077002101 ABC transporter signature motif; other site 491077002102 Walker B; other site 491077002103 D-loop; other site 491077002104 H-loop/switch region; other site 491077002105 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 491077002106 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 491077002107 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 491077002108 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002109 Integrase core domain; Region: rve; cl01316 491077002110 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 491077002111 Ligand Binding Site [chemical binding]; other site 491077002112 Tet(M)-like subfamily. Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor...; Region: TetM_like; cd04168 491077002113 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 491077002114 G1 box; other site 491077002115 putative GEF interaction site [polypeptide binding]; other site 491077002116 GTP/Mg2+ binding site [chemical binding]; other site 491077002117 Switch I region; other site 491077002118 G2 box; other site 491077002119 G3 box; other site 491077002120 Switch II region; other site 491077002121 G4 box; other site 491077002122 G5 box; other site 491077002123 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding...; Region: Translation_Factor_II_like; cl02787 491077002124 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 491077002125 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a GTP-...; Region: Tet_C; cd03711 491077002126 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 491077002127 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 491077002128 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002129 Integrase core domain; Region: rve; cl01316 491077002130 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 491077002131 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 491077002132 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 491077002133 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 491077002134 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 491077002135 putative phosphoketolase; Provisional; Region: PRK05261 491077002136 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 491077002137 TPP-binding site; other site 491077002138 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 491077002139 XFP C-terminal domain; Region: XFP_C; pfam09363 491077002140 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491077002141 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 491077002142 DNA-binding site [nucleotide binding]; DNA binding site 491077002143 UTRA domain; Region: UTRA; cl01230 491077002144 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002145 Integrase core domain; Region: rve; cl01316 491077002146 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS); Region: YbaK_deacylase; cd00002 491077002147 putative deacylase active site [active] 491077002148 Peptidase family C69; Region: Peptidase_C69; cl01920 491077002149 ribonucleoside-triphosphate reductase, adenosylcobalamin-dependent; Region: RTPR; TIGR02505 491077002150 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 491077002151 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 491077002152 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 491077002153 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...; Region: ABCC_Glucan_exporter_like; cd03254 491077002154 Walker A/P-loop; other site 491077002155 ATP binding site [chemical binding]; other site 491077002156 Q-loop/lid; other site 491077002157 ABC transporter signature motif; other site 491077002158 Walker B; other site 491077002159 D-loop; other site 491077002160 H-loop/switch region; other site 491077002161 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 491077002162 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 491077002163 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077002164 Walker A/P-loop; other site 491077002165 ATP binding site [chemical binding]; other site 491077002166 Q-loop/lid; other site 491077002167 ABC transporter signature motif; other site 491077002168 Walker B; other site 491077002169 D-loop; other site 491077002170 H-loop/switch region; other site 491077002171 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077002172 D-lactate dehydrogenase; Validated; Region: PRK08605 491077002173 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077002174 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002175 Integrase core domain; Region: rve; cl01316 491077002176 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 491077002177 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077002178 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077002179 Probable transposase; Region: OrfB_IS605; pfam01385 491077002180 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 491077002181 Transposase IS200 like; Region: Y1_Tnp; cl00848 491077002182 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 491077002183 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 491077002184 active site pocket [active] 491077002185 putative dimer interface [polypeptide binding]; other site 491077002186 putative cataytic base [active] 491077002187 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 491077002188 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...; Region: HemD; cd06578 491077002189 active site 491077002190 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 491077002191 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 491077002192 catalytic core [active] 491077002193 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 491077002194 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is...; Region: CobU; cd00544 491077002195 homotrimer interface [polypeptide binding]; other site 491077002196 Walker A motif; other site 491077002197 GTP binding site [chemical binding]; other site 491077002198 Walker B motif; other site 491077002199 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 491077002200 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 491077002201 inhibitor-cofactor binding pocket; inhibition site 491077002202 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077002203 catalytic residue [active] 491077002204 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 491077002205 dimer interface [polypeptide binding]; other site 491077002206 active site 491077002207 Schiff base residues; other site 491077002208 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 491077002209 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 491077002210 domain interfaces; other site 491077002211 active site 491077002212 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 491077002213 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 491077002214 tRNA; other site 491077002215 putative tRNA binding site [nucleotide binding]; other site 491077002216 putative NADP binding site [chemical binding]; other site 491077002217 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 491077002218 precorrin-2 dehydrogenase; Validated; Region: PRK06719 491077002219 cobyric acid synthase; Provisional; Region: PRK00784 491077002220 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 491077002221 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 491077002222 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 491077002223 catalytic triad [active] 491077002224 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13638 491077002225 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 491077002226 Walker A/P-loop; other site 491077002227 ATP binding site [chemical binding]; other site 491077002228 Q-loop/lid; other site 491077002229 ABC transporter signature motif; other site 491077002230 Walker B; other site 491077002231 D-loop; other site 491077002232 H-loop/switch region; other site 491077002233 Cobalt transport protein; Region: CbiQ; cl00463 491077002234 Cobalt transport protein component CbiN; Region: CbiN; cl00842 491077002235 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 491077002236 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 491077002237 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 491077002238 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 491077002239 active site 491077002240 C-terminal domain interface [polypeptide binding]; other site 491077002241 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 491077002242 active site 491077002243 N-terminal domain interface [polypeptide binding]; other site 491077002244 bifunctional uroporphyrinogen-III methyltransferase/uroporphyrinogen-III synthase; Reviewed; Region: PRK07168 491077002245 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 491077002246 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...; Region: HemD; cd06578 491077002247 active site 491077002248 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 491077002249 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 491077002250 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 491077002251 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 491077002252 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 491077002253 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 491077002254 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 491077002255 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 491077002256 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 491077002257 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 491077002258 S-adenosylmethionine binding site [chemical binding]; other site 491077002259 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 491077002260 CbiD; Region: CbiD; cl00828 491077002261 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 491077002262 Precorrin-8X methylmutase; Region: CbiC; pfam02570 491077002263 CobD/Cbib protein; Region: CobD_Cbib; cl00561 491077002264 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 491077002265 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 491077002266 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 491077002267 catalytic triad [active] 491077002268 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 491077002269 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 491077002270 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077002271 homodimer interface [polypeptide binding]; other site 491077002272 catalytic residue [active] 491077002273 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 491077002274 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 491077002275 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 491077002276 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 491077002277 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 491077002278 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 491077002279 G3 box; other site 491077002280 Switch II region; other site 491077002281 GTP/Mg2+ binding site [chemical binding]; other site 491077002282 G4 box; other site 491077002283 G5 box; other site 491077002284 Cadmium resistance transporter; Region: Cad; cl04177 491077002285 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 491077002286 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 491077002287 catalytic core [active] 491077002288 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 491077002289 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 491077002290 putative hexamer interface [polypeptide binding]; other site 491077002291 putative hexagonal pore; other site 491077002292 Acetokinase family; Region: Acetate_kinase; cl01029 491077002293 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 491077002294 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 491077002295 putative active site [active] 491077002296 metal binding site [ion binding]; metal-binding site 491077002297 aldehyde dehydrogenase EutE; Provisional; Region: PRK15398 491077002298 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 491077002299 putative catalytic cysteine [active] 491077002300 Domain of unknown function (DUF336); Region: DUF336; cl01249 491077002301 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 491077002302 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 491077002303 Hexamer/Pentamer interface [polypeptide binding]; other site 491077002304 central pore; other site 491077002305 putative propanediol utilization protein PduM; Provisional; Region: PRK15428 491077002306 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 491077002307 Propanediol utilisation protein PduL; Region: PduL; pfam06130 491077002308 Propanediol utilisation protein PduL; Region: PduL; pfam06130 491077002309 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 491077002310 Hexamer interface [polypeptide binding]; other site 491077002311 Hexagonal pore residue; other site 491077002312 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 491077002313 Bacterial Micro-Compartment (BMC) domain repeat 1l; Region: BMC_PduK; cd07056 491077002314 putative hexamer interface [polypeptide binding]; other site 491077002315 putative hexagonal pore; other site 491077002316 Cell division protein FtsA; Region: FtsA; cl11496 491077002317 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 491077002318 Dehydratase small subunit; Region: Dehydratase_SU; cl02055 491077002319 Dehydratase medium subunit; Region: Dehydratase_MU; cl03516 491077002320 Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduC; COG4909 491077002321 Dehydratase large subunit. This family contains the large (alpha) subunit of B12-dependent glycerol dehydratases (GDHs) and B12-dependent diol dehydratases (DDHs). GDH is isofunctional with DDH. These enzymes can each catalyze the conversion of 1,2-...; Region: Dehydratase_LU; cl12104 491077002322 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 491077002323 alpha-beta subunit interface [polypeptide binding]; other site 491077002324 alpha-gamma subunit interface [polypeptide binding]; other site 491077002325 active site 491077002326 substrate and K+ binding site; other site 491077002327 K+ binding site [ion binding]; other site 491077002328 cobalamin binding site [chemical binding]; other site 491077002329 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 491077002330 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutL; COG4816 491077002331 Hexamer interface [polypeptide binding]; other site 491077002332 Hexagonal pore residue; other site 491077002333 Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 491077002334 putative hexamer interface [polypeptide binding]; other site 491077002335 putative hexagonal pore; other site 491077002336 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 491077002337 Hexamer interface [polypeptide binding]; other site 491077002338 Hexagonal pore residue; other site 491077002339 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491077002340 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491077002341 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 491077002342 Cell division protein FtsA; Region: FtsA; cl11496 491077002343 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 491077002344 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-...; Region: MIP; cd00333 491077002345 amphipathic channel; other site 491077002346 Asn-Pro-Ala signature motifs; other site 491077002347 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 491077002348 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 491077002349 Domain of unknown function DUF20; Region: UPF0118; cl00465 491077002350 B3/4 domain; Region: B3_4; cl11458 491077002351 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077002352 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 491077002353 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077002354 active site 491077002355 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 491077002356 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077002357 Walker A/P-loop; other site 491077002358 ATP binding site [chemical binding]; other site 491077002359 Q-loop/lid; other site 491077002360 ABC transporter signature motif; other site 491077002361 Walker B; other site 491077002362 D-loop; other site 491077002363 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 491077002364 Domain of unknown function DUF21; Region: DUF21; pfam01595 491077002365 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 491077002366 Transporter associated domain; Region: CorC_HlyC; cl08393 491077002367 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 491077002368 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 491077002369 dimer interface [polypeptide binding]; other site 491077002370 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 491077002371 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 491077002372 putative substrate translocation pore; other site 491077002373 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 491077002374 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 491077002375 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 491077002376 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077002377 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 491077002378 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 491077002379 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 491077002380 putative transporter; Provisional; Region: PRK11462 491077002381 PTS_IIA, PTS system, glucose/sucrose 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_glc; cd00210 491077002382 HPr interaction site; other site 491077002383 glycerol kinase (GK) interaction site [polypeptide binding]; other site 491077002384 active site 491077002385 phosphorylation site [posttranslational modification] 491077002386 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077002387 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077002388 Probable transposase; Region: OrfB_IS605; pfam01385 491077002389 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 491077002390 Transposase IS200 like; Region: Y1_Tnp; cl00848 491077002391 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 491077002392 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 491077002393 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 491077002394 Ligand Binding Site [chemical binding]; other site 491077002395 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491077002396 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077002397 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 491077002398 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 491077002399 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 491077002400 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002401 Integrase core domain; Region: rve; cl01316 491077002402 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 491077002403 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491077002404 DNA binding site [nucleotide binding] 491077002405 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 491077002406 putative ligand binding site [chemical binding]; other site 491077002407 putative dimerization interface [polypeptide binding]; other site 491077002408 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 491077002409 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...; Region: HIT_like; cl00228 491077002410 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...; Region: HIT_like; cl00228 491077002411 galactokinase; Provisional; Region: PRK05322 491077002412 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 491077002413 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 491077002414 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 491077002415 Endoglucanase E-like members of the SGNH hydrolase family; Endoglucanase E catalyzes the endohydrolysis of 1,4-beta-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans; Region: Endoglucanase_E_like; cd01831 491077002416 catalytic triad [active] 491077002417 active site 491077002418 oxyanion hole [active] 491077002419 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 491077002420 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 491077002421 substrate binding site [chemical binding]; other site 491077002422 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 491077002423 domain; Region: GreA_GreB_N; pfam03449 491077002424 C-term; Region: GreA_GreB; pfam01272 491077002425 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 491077002426 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...; Region: Aldo_ket_red; cd06660 491077002427 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491077002428 active site 491077002429 catalytic tetrad [active] 491077002430 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491077002431 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 491077002432 active site 491077002433 phosphorylation site [posttranslational modification] 491077002434 intermolecular recognition site; other site 491077002435 dimerization interface [polypeptide binding]; other site 491077002436 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...; Region: trans_reg_C; cd00383 491077002437 DNA binding site [nucleotide binding] 491077002438 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491077002439 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 491077002440 ATP binding site [chemical binding]; other site 491077002441 Mg2+ binding site [ion binding]; other site 491077002442 G-X-G motif; other site 491077002443 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 491077002444 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 491077002445 Walker A/P-loop; other site 491077002446 ATP binding site [chemical binding]; other site 491077002447 Q-loop/lid; other site 491077002448 ABC transporter signature motif; other site 491077002449 Walker B; other site 491077002450 D-loop; other site 491077002451 H-loop/switch region; other site 491077002452 FtsX-like permease family; Region: FtsX; pfam02687 491077002453 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 491077002454 conserved cys residue [active] 491077002455 cysteine synthases; Region: cysKM; TIGR01136 491077002456 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 491077002457 dimer interface [polypeptide binding]; other site 491077002458 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077002459 catalytic residue [active] 491077002460 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 491077002461 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 491077002462 DNA binding residues [nucleotide binding] 491077002463 dimer interface [polypeptide binding]; other site 491077002464 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 491077002465 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 491077002466 putative active site [active] 491077002467 catalytic site [active] 491077002468 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 491077002469 putative active site [active] 491077002470 catalytic site [active] 491077002471 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 491077002472 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 491077002473 putative substrate translocation pore; other site 491077002474 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 491077002475 putative ADP-ribose binding site [chemical binding]; other site 491077002476 putative active site [active] 491077002477 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 491077002478 non-specific DNA binding site [nucleotide binding]; other site 491077002479 salt bridge; other site 491077002480 sequence-specific DNA binding site [nucleotide binding]; other site 491077002481 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 491077002482 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 491077002483 active site 491077002484 Zn binding site [ion binding]; other site 491077002485 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 491077002486 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...; Region: AAA; cd00009 491077002487 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 491077002488 Walker A motif; other site 491077002489 ATP binding site [chemical binding]; other site 491077002490 Walker B motif; other site 491077002491 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 491077002492 active site 491077002493 DNA binding site [nucleotide binding] 491077002494 Protein of unknown function, DUF488; Region: DUF488; cl01246 491077002495 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002496 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 491077002497 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002498 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 491077002499 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 491077002500 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 491077002501 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 491077002502 Predicted membrane protein [Function unknown]; Region: COG4905 491077002503 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 491077002504 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 491077002505 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077002506 Walker A/P-loop; other site 491077002507 ATP binding site [chemical binding]; other site 491077002508 Q-loop/lid; other site 491077002509 ABC transporter signature motif; other site 491077002510 Walker B; other site 491077002511 D-loop; other site 491077002512 H-loop/switch region; other site 491077002513 ABC transporter; Region: ABC_tran_2; pfam12848 491077002514 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...; Region: ABCF_EF-3; cd03221 491077002515 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002516 Integrase core domain; Region: rve; cl01316 491077002517 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 491077002518 putative DNA binding site [nucleotide binding]; other site 491077002519 putative Zn2+ binding site [ion binding]; other site 491077002520 Membrane transport protein; Region: Mem_trans; cl09117 491077002521 Low molecular weight phosphatase family; Region: LMWPc; cd00115 491077002522 Active site [active] 491077002523 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 491077002524 dimerization interface [polypeptide binding]; other site 491077002525 putative DNA binding site [nucleotide binding]; other site 491077002526 putative Zn2+ binding site [ion binding]; other site 491077002527 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 491077002528 Cadmium resistance transporter; Region: Cad; cl04177 491077002529 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 491077002530 non-specific DNA binding site [nucleotide binding]; other site 491077002531 salt bridge; other site 491077002532 sequence-specific DNA binding site [nucleotide binding]; other site 491077002533 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 491077002534 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 491077002535 non-specific DNA binding site [nucleotide binding]; other site 491077002536 salt bridge; other site 491077002537 sequence-specific DNA binding site [nucleotide binding]; other site 491077002538 Protein of unknown function (DUF3278); Region: DUF3278; pfam11683 491077002539 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 491077002540 putative peptidoglycan binding site; other site 491077002541 NlpC/P60 family; Region: NLPC_P60; cl11438 491077002542 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG2984 491077002543 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 491077002544 zinc binding site [ion binding]; other site 491077002545 putative ligand binding site [chemical binding]; other site 491077002546 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 491077002547 TM-ABC transporter signature motif; other site 491077002548 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 491077002549 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077002550 Walker A/P-loop; other site 491077002551 ATP binding site [chemical binding]; other site 491077002552 Q-loop/lid; other site 491077002553 ABC transporter signature motif; other site 491077002554 Walker B; other site 491077002555 D-loop; other site 491077002556 H-loop/switch region; other site 491077002557 Cadmium resistance transporter; Region: Cad; cl04177 491077002558 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 491077002559 dimerization interface [polypeptide binding]; other site 491077002560 putative DNA binding site [nucleotide binding]; other site 491077002561 putative Zn2+ binding site [ion binding]; other site 491077002562 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 491077002563 MatE; Region: MatE; cl10513 491077002564 MatE; Region: MatE; cl10513 491077002565 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077002566 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077002567 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 491077002568 Transposase; Region: DEDD_Tnp_IS110; pfam01548 491077002569 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 491077002570 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002571 Integrase core domain; Region: rve; cl01316 491077002572 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 491077002573 catalytic residues [active] 491077002574 Integral membrane protein TerC family; Region: TerC; cl10468 491077002575 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 491077002576 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...; Region: PseudoU_synth_RluCD_like; cd02869 491077002577 active site 491077002578 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 491077002579 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 491077002580 Peptidase family C69; Region: Peptidase_C69; cl01920 491077002581 Permease family; Region: Xan_ur_permease; pfam00860 491077002582 Sulfate transporter family; Region: Sulfate_transp; cl00967 491077002583 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 491077002584 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; cl09110 491077002585 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; cl09110 491077002586 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002587 Integrase core domain; Region: rve; cl01316 491077002588 potential frameshift: common BLAST hit: gi|148545042|ref|YP_001272412.1| C4-dicarboxylate anaerobic carrier 491077002589 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; cl09110 491077002590 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; cl09110 491077002591 classical (c) SDRs; Region: SDR_c; cd05233 491077002592 active site 491077002593 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077002594 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077002595 Probable transposase; Region: OrfB_IS605; pfam01385 491077002596 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 491077002597 Transposase IS200 like; Region: Y1_Tnp; cl00848 491077002598 Transcriptional regulator [Transcription]; Region: IclR; COG1414 491077002599 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077002600 Bacterial transcriptional regulator; Region: IclR; pfam01614 491077002601 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 491077002602 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 491077002603 catalytic core [active] 491077002604 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 491077002605 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 491077002606 Sulfatase; Region: Sulfatase; cl10460 491077002607 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 491077002608 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 491077002609 dimer interface [polypeptide binding]; other site 491077002610 active site 491077002611 metal binding site [ion binding]; metal-binding site 491077002612 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002613 Integrase core domain; Region: rve; cl01316 491077002614 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077002615 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077002616 putative active site [active] 491077002617 putative NTP binding site [chemical binding]; other site 491077002618 putative nucleic acid binding site [nucleotide binding]; other site 491077002619 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077002620 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; cl14892 491077002621 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002622 Integrase core domain; Region: rve; cl01316 491077002623 Beta-lactamase; Region: Beta-lactamase; cl01009 491077002624 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 491077002625 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 491077002626 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 491077002627 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 491077002628 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 491077002629 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 491077002630 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 491077002631 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077002632 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 491077002633 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 491077002634 dimer interface [polypeptide binding]; other site 491077002635 motif 1; other site 491077002636 active site 491077002637 motif 2; other site 491077002638 motif 3; other site 491077002639 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 491077002640 anticodon binding site; other site 491077002641 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 491077002642 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491077002643 putative substrate translocation pore; other site 491077002644 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491077002645 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491077002646 DNA binding site [nucleotide binding] 491077002647 domain linker motif; other site 491077002648 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 491077002649 dimerization interface [polypeptide binding]; other site 491077002650 ligand binding site [chemical binding]; other site 491077002651 sodium binding site [ion binding]; other site 491077002652 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 491077002653 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 491077002654 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 491077002655 putative peptidoglycan binding site; other site 491077002656 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 491077002657 putative peptidoglycan binding site; other site 491077002658 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 491077002659 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 491077002660 putative peptidoglycan binding site; other site 491077002661 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 491077002662 putative peptidoglycan binding site; other site 491077002663 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 491077002664 dimerization interface [polypeptide binding]; other site 491077002665 putative DNA binding site [nucleotide binding]; other site 491077002666 putative Zn2+ binding site [ion binding]; other site 491077002667 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 491077002668 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 491077002669 Walker A/P-loop; other site 491077002670 ATP binding site [chemical binding]; other site 491077002671 Q-loop/lid; other site 491077002672 ABC transporter signature motif; other site 491077002673 Walker B; other site 491077002674 D-loop; other site 491077002675 H-loop/switch region; other site 491077002676 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 491077002677 FtsX-like permease family; Region: FtsX; pfam02687 491077002678 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 491077002679 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 491077002680 Walker A/P-loop; other site 491077002681 ATP binding site [chemical binding]; other site 491077002682 Q-loop/lid; other site 491077002683 ABC transporter signature motif; other site 491077002684 Walker B; other site 491077002685 D-loop; other site 491077002686 H-loop/switch region; other site 491077002687 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 491077002688 FtsX-like permease family; Region: FtsX; pfam02687 491077002689 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491077002690 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491077002691 L-threonine dehydrogenase; Region: threonine_DH_like; cd08234 491077002692 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 491077002693 putative NAD(P) binding site [chemical binding]; other site 491077002694 catalytic Zn binding site [ion binding]; other site 491077002695 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 491077002696 putative transposase OrfB; Reviewed; Region: PHA02517 491077002697 Integrase core domain; Region: rve; cl01316 491077002698 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 491077002699 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 491077002700 active site 491077002701 dimer interface [polypeptide binding]; other site 491077002702 motif 1; other site 491077002703 motif 2; other site 491077002704 motif 3; other site 491077002705 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 491077002706 anticodon binding site; other site 491077002707 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 491077002708 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 491077002709 putative substrate translocation pore; other site 491077002710 potential frameshift: common BLAST hit: gi|148545069|ref|YP_001272439.1| type I phosphodiesterase/nucleotide pyrophosphatase 491077002711 potential frameshift: common BLAST hit: gi|148545069|ref|YP_001272439.1| type I phosphodiesterase/nucleotide pyrophosphatase 491077002712 Sulfatase; Region: Sulfatase; cl10460 491077002713 Sulfatase; Region: Sulfatase; cl10460 491077002714 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 491077002715 potential frameshift: common BLAST hit: gi|148545071|ref|YP_001272441.1| 2-dehydropantoate 2-reductase 491077002716 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077002717 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 491077002718 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077002719 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002720 Integrase core domain; Region: rve; cl01316 491077002721 Integrase core domain; Region: rve; cl01316 491077002722 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 491077002723 Uncharacterised protein family (UPF0236); Region: UPF0236; pfam06782 491077002724 Uncharacterised protein family (UPF0236); Region: UPF0236; pfam06782 491077002725 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077002726 NAD(P) binding site [chemical binding]; other site 491077002727 active site 491077002728 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077002729 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 491077002730 dimer interface [polypeptide binding]; other site 491077002731 FMN binding site [chemical binding]; other site 491077002732 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 491077002733 dimerization interface [polypeptide binding]; other site 491077002734 putative DNA binding site [nucleotide binding]; other site 491077002735 putative Zn2+ binding site [ion binding]; other site 491077002736 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 491077002737 putative substrate translocation pore; other site 491077002738 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491077002739 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH...; Region: Peptidase_C1B; cd00585 491077002740 trimer interface [polypeptide binding]; other site 491077002741 active site 491077002742 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 491077002743 NAD(P) binding site [chemical binding]; other site 491077002744 putative active site [active] 491077002745 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 491077002746 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 491077002747 Zn binding site [ion binding]; other site 491077002748 Predicted transcriptional regulator [Transcription]; Region: COG1959 491077002749 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077002750 T-box leader; HMPREF0538_nc20023 491077002751 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 491077002752 dimer interface [polypeptide binding]; other site 491077002753 active site 491077002754 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 491077002755 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 491077002756 putative dimer interface [polypeptide binding]; other site 491077002757 putative anticodon binding site; other site 491077002758 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...; Region: AsxRS_core; cd00776 491077002759 homodimer interface [polypeptide binding]; other site 491077002760 motif 1; other site 491077002761 motif 2; other site 491077002762 active site 491077002763 motif 3; other site 491077002764 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002765 Integrase core domain; Region: rve; cl01316 491077002766 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002767 Integrase core domain; Region: rve; cl01316 491077002768 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 491077002769 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 491077002770 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 491077002771 catalytic triad [active] 491077002772 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 491077002773 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077002774 NmrA-like family; Region: NmrA; pfam05368 491077002775 NAD(P) binding site [chemical binding]; other site 491077002776 active site 491077002777 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...; Region: Aldo_ket_red; cd06660 491077002778 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491077002779 active site 491077002780 catalytic tetrad [active] 491077002781 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002782 Integrase core domain; Region: rve; cl01316 491077002783 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491077002784 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077002785 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 491077002786 tetramer interface [polypeptide binding]; other site 491077002787 active site/substrate binding site [active] 491077002788 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 491077002789 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 491077002790 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491077002791 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 491077002792 NAD binding site [chemical binding]; other site 491077002793 dimer interface [polypeptide binding]; other site 491077002794 substrate binding site [chemical binding]; other site 491077002795 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 491077002796 T-box leader; HMPREF0538_nc20024 491077002797 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; cl14892 491077002798 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 491077002799 putative trimer interface [polypeptide binding]; other site 491077002800 putative CoA binding site [chemical binding]; other site 491077002801 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 491077002802 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 connected by an extended linker. The...; Region: HAMP; cl01054 491077002803 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 trans-...; Region: HisKA; cd00082 491077002804 dimer interface [polypeptide binding]; other site 491077002805 phosphorylation site [posttranslational modification] 491077002806 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 491077002807 ATP binding site [chemical binding]; other site 491077002808 Mg2+ binding site [ion binding]; other site 491077002809 G-X-G motif; other site 491077002810 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491077002811 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 491077002812 active site 491077002813 phosphorylation site [posttranslational modification] 491077002814 intermolecular recognition site; other site 491077002815 dimerization interface [polypeptide binding]; other site 491077002816 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...; Region: trans_reg_C; cd00383 491077002817 DNA binding site [nucleotide binding] 491077002818 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 5,10-...; Region: DHFR; cl00161 491077002819 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002820 Beta-lactamase; Region: Beta-lactamase; cl01009 491077002821 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 491077002822 MgtC family; Region: MgtC; cl12207 491077002823 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 491077002824 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 491077002825 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002826 Integrase core domain; Region: rve; cl01316 491077002827 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 491077002828 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 491077002829 AzlC protein; Region: AzlC; cl00570 491077002830 Transposase IS200 like; Region: Y1_Tnp; cl00848 491077002831 AzlC protein; Region: AzlC; cl00570 491077002832 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 491077002833 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491077002834 DNA-binding site [nucleotide binding]; DNA binding site 491077002835 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 491077002836 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077002837 homodimer interface [polypeptide binding]; other site 491077002838 catalytic residue [active] 491077002839 potential frameshift: common BLAST hit: gi|148545131|ref|YP_001272501.1| amidohydrolase 3 491077002840 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...; Region: metallo-dependent_hydrolases; cl00281 491077002841 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...; Region: metallo-dependent_hydrolases; cl00281 491077002842 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077002843 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077002844 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077002845 putative active site [active] 491077002846 putative NTP binding site [chemical binding]; other site 491077002847 putative nucleic acid binding site [nucleotide binding]; other site 491077002848 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 491077002849 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 491077002850 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88)...; Region: Peptidase_S24_S26; cd06462 491077002851 Catalytic site [active] 491077002852 Type IV secretory pathway, protease TraF [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: TraF; COG4959 491077002853 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 491077002854 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 491077002855 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 491077002856 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 491077002857 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491077002858 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 491077002859 exosortase 1 system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 491077002860 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 491077002861 active site 491077002862 dimer interface [polypeptide binding]; other site 491077002863 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...; Region: Asn_Synthase_B_C; cd01991 491077002864 Ligand Binding Site [chemical binding]; other site 491077002865 Molecular Tunnel; other site 491077002866 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077002867 Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]; Region: GidA; COG0445 491077002868 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 491077002869 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 491077002870 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 491077002871 GTP/Mg2+ binding site [chemical binding]; other site 491077002872 G4 box; other site 491077002873 G5 box; other site 491077002874 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 491077002875 G1 box; other site 491077002876 G1 box; other site 491077002877 GTP/Mg2+ binding site [chemical binding]; other site 491077002878 Switch I region; other site 491077002879 Switch I region; other site 491077002880 G2 box; other site 491077002881 G2 box; other site 491077002882 Switch II region; other site 491077002883 G3 box; other site 491077002884 G3 box; other site 491077002885 Switch II region; other site 491077002886 G4 box; other site 491077002887 G5 box; other site 491077002888 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 491077002889 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 491077002890 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 491077002891 G-X-X-G motif; other site 491077002892 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 491077002893 RxxxH motif; other site 491077002894 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 491077002895 Ribonuclease P; Region: Ribonuclease_P; cl00457 491077002896 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 491077002897 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 491077002898 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...; Region: AAA; cd00009 491077002899 Walker A motif; other site 491077002900 ATP binding site [chemical binding]; other site 491077002901 Walker B motif; other site 491077002902 arginine finger; other site 491077002903 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 491077002904 DnaA box-binding interface [nucleotide binding]; other site 491077002905 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...; Region: beta_clamp; cd00140 491077002906 DNA polymerase III beta subunit; Region: POL3Bc; smart00480 491077002907 putative DNA binding surface [nucleotide binding]; other site 491077002908 dimer interface [polypeptide binding]; other site 491077002909 beta-clamp/clamp loader binding surface; other site 491077002910 beta-clamp/translesion DNA polymerase binding surface; other site 491077002911 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 491077002912 recombination protein F; Reviewed; Region: recF; PRK00064 491077002913 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 491077002914 Walker A/P-loop; other site 491077002915 ATP binding site [chemical binding]; other site 491077002916 Q-loop/lid; other site 491077002917 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077002918 ABC transporter signature motif; other site 491077002919 Walker B; other site 491077002920 D-loop; other site 491077002921 H-loop/switch region; other site 491077002922 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 491077002923 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 491077002924 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 491077002925 anchoring element; other site 491077002926 dimer interface [polypeptide binding]; other site 491077002927 ATP binding site [chemical binding]; other site 491077002928 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 491077002929 active site 491077002930 putative metal-binding site [ion binding]; other site 491077002931 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 491077002932 DNA gyrase subunit A; Validated; Region: PRK05560 491077002933 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...; Region: TOP4c; cd00187 491077002934 CAP-like domain; other site 491077002935 Active site [active] 491077002936 primary dimer interface [polypeptide binding]; other site 491077002937 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491077002938 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491077002939 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491077002940 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491077002941 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491077002942 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 491077002943 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 491077002944 dimer interface [polypeptide binding]; other site 491077002945 ssDNA binding site [nucleotide binding]; other site 491077002946 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491077002947 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 491077002948 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 491077002949 intersubunit interface [polypeptide binding]; other site 491077002950 catalytic residue [active] 491077002951 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 491077002952 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 491077002953 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 491077002954 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 491077002955 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 491077002956 DHH family; Region: DHH; pfam01368 491077002957 DHHA1 domain; Region: DHHA1; pfam02272 491077002958 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 491077002959 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 491077002960 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 491077002961 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 491077002962 replicative DNA helicase; Provisional; Region: PRK05748 491077002963 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 491077002964 Walker A motif; other site 491077002965 ATP binding site [chemical binding]; other site 491077002966 Walker B motif; other site 491077002967 DNA binding loops [nucleotide binding] 491077002968 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 491077002969 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491077002970 putative substrate translocation pore; other site 491077002971 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 491077002972 Fic family protein [Function unknown]; Region: COG3177 491077002973 Fic/DOC family; Region: Fic; cl00960 491077002974 Transcriptional regulators [Transcription]; Region: MarR; COG1846 491077002975 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077002976 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 491077002977 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 491077002978 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077002979 Walker A/P-loop; other site 491077002980 ATP binding site [chemical binding]; other site 491077002981 Q-loop/lid; other site 491077002982 ABC transporter signature motif; other site 491077002983 Walker B; other site 491077002984 D-loop; other site 491077002985 H-loop/switch region; other site 491077002986 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491077002987 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 491077002988 active site 491077002989 phosphorylation site [posttranslational modification] 491077002990 intermolecular recognition site; other site 491077002991 dimerization interface [polypeptide binding]; other site 491077002992 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...; Region: trans_reg_C; cd00383 491077002993 DNA binding site [nucleotide binding] 491077002994 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 491077002995 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 connected by an extended linker. The...; Region: HAMP; cd06225 491077002996 dimerization interface [polypeptide binding]; other site 491077002997 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 491077002998 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 trans-...; Region: HisKA; cd00082 491077002999 dimer interface [polypeptide binding]; other site 491077003000 phosphorylation site [posttranslational modification] 491077003001 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 491077003002 ATP binding site [chemical binding]; other site 491077003003 Mg2+ binding site [ion binding]; other site 491077003004 G-X-G motif; other site 491077003005 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 491077003006 YycH protein; Region: YycH; pfam07435 491077003007 YycH protein; Region: YycI; cl02015 491077003008 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 491077003009 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...; Region: Tryp_SPc; cl00149 491077003010 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 C-...; Region: PDZ_serine_protease; cd00987 491077003011 protein binding site [polypeptide binding]; other site 491077003012 Transposase; Region: DEDD_Tnp_IS110; pfam01548 491077003013 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 491077003014 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 491077003015 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 491077003016 tetramer interfaces [polypeptide binding]; other site 491077003017 binuclear metal-binding site [ion binding]; other site 491077003018 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 491077003019 zinc binding site [ion binding]; other site 491077003020 putative ligand binding site [chemical binding]; other site 491077003021 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 491077003022 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 491077003023 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 491077003024 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 491077003025 dimer interface [polypeptide binding]; other site 491077003026 active site 491077003027 metal binding site [ion binding]; metal-binding site 491077003028 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003029 Integrase core domain; Region: rve; cl01316 491077003030 OsmC-like protein; Region: OsmC; cl00767 491077003031 D-lactate dehydrogenase; Validated; Region: PRK08605 491077003032 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077003033 hypothetical protein; Validated; Region: PRK07682 491077003034 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 491077003035 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077003036 homodimer interface [polypeptide binding]; other site 491077003037 catalytic residue [active] 491077003038 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...; Region: AAA; cd00009 491077003039 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 491077003040 Walker A motif; other site 491077003041 ATP binding site [chemical binding]; other site 491077003042 Walker B motif; other site 491077003043 arginine finger; other site 491077003044 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...; Region: AAA; cd00009 491077003045 Walker A motif; other site 491077003046 ATP binding site [chemical binding]; other site 491077003047 Walker B motif; other site 491077003048 arginine finger; other site 491077003049 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 491077003050 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 491077003051 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 491077003052 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 491077003053 putative active site [active] 491077003054 catalytic site [active] 491077003055 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 491077003056 putative active site [active] 491077003057 catalytic site [active] 491077003058 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 491077003059 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 491077003060 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 491077003061 helicase-exonuclease AddAB, AddA subunit; Region: addA_Gpos; TIGR02785 491077003062 UvrD/REP helicase; Region: UvrD-helicase; cl14126 491077003063 helicase-exonuclease AddAB, AddA subunit; Region: addA_Gpos; TIGR02785 491077003064 UvrD/REP helicase; Region: UvrD-helicase; cl14126 491077003065 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 491077003066 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491077003067 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491077003068 DNA binding site [nucleotide binding] 491077003069 domain linker motif; other site 491077003070 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 491077003071 putative dimerization interface [polypeptide binding]; other site 491077003072 putative ligand binding site [chemical binding]; other site 491077003073 putative acyltransferase; Provisional; Region: PRK05790 491077003074 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 491077003075 dimer interface [polypeptide binding]; other site 491077003076 active site 491077003077 GPH family sucrose/H+ symporter; Region: GPH_sucrose; TIGR01301 491077003078 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491077003079 maltose phosphorylase; Provisional; Region: PRK13807 491077003080 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 491077003081 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 491077003082 beta-phosphoglucomutase; Region: bPGM; TIGR01990 491077003083 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 491077003084 motif II; other site 491077003085 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 491077003086 synthetase active site [active] 491077003087 NTP binding site [chemical binding]; other site 491077003088 metal binding site [ion binding]; metal-binding site 491077003089 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491077003090 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 491077003091 active site 491077003092 phosphorylation site [posttranslational modification] 491077003093 intermolecular recognition site; other site 491077003094 dimerization interface [polypeptide binding]; other site 491077003095 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...; Region: trans_reg_C; cd00383 491077003096 DNA binding site [nucleotide binding] 491077003097 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 trans-...; Region: HisKA; cd00082 491077003098 dimer interface [polypeptide binding]; other site 491077003099 phosphorylation site [posttranslational modification] 491077003100 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 491077003101 ATP binding site [chemical binding]; other site 491077003102 Mg2+ binding site [ion binding]; other site 491077003103 G-X-G motif; other site 491077003104 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 491077003105 Cl- selectivity filter; other site 491077003106 Cl- binding residues [ion binding]; other site 491077003107 pore gating glutamate residue; other site 491077003108 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl01099 491077003109 Peptidase C26; Region: Peptidase_C26; pfam07722 491077003110 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 491077003111 catalytic triad [active] 491077003112 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...; Region: Aldo_ket_red; cd06660 491077003113 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491077003114 active site 491077003115 catalytic tetrad [active] 491077003116 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 491077003117 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 491077003118 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 491077003119 putative active site [active] 491077003120 catalytic site [active] 491077003121 putative metal binding site [ion binding]; other site 491077003122 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 491077003123 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 491077003124 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 491077003125 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 491077003126 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 491077003127 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...; Region: IMPDH; cd00381 491077003128 active site 491077003129 adenylosuccinate synthetase; Provisional; Region: PRK01117 491077003130 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 r-...; Region: AdSS; cd03108 491077003131 GDP-binding site [chemical binding]; other site 491077003132 ACT binding site; other site 491077003133 IMP binding site; other site 491077003134 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 491077003135 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077003136 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077003137 putative active site [active] 491077003138 putative NTP binding site [chemical binding]; other site 491077003139 putative nucleic acid binding site [nucleotide binding]; other site 491077003140 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077003141 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 491077003142 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 491077003143 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 491077003144 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 491077003145 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 491077003146 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 491077003147 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 491077003148 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 491077003149 GPH family sucrose/H+ symporter; Region: GPH_sucrose; TIGR01301 491077003150 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077003151 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077003152 putative active site [active] 491077003153 putative NTP binding site [chemical binding]; other site 491077003154 putative nucleic acid binding site [nucleotide binding]; other site 491077003155 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077003156 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 491077003157 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 491077003158 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 491077003159 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 491077003160 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 491077003161 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 491077003162 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 491077003163 substrate binding site [chemical binding]; other site 491077003164 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 491077003165 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 491077003166 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 491077003167 catalytic site [active] 491077003168 subunit interface [polypeptide binding]; other site 491077003169 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 491077003170 putative substrate translocation pore; other site 491077003171 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491077003172 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491077003173 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491077003174 DNA binding site [nucleotide binding] 491077003175 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 491077003176 dimerization interface [polypeptide binding]; other site 491077003177 ligand binding site [chemical binding]; other site 491077003178 TRAM domain; Region: TRAM; cl01282 491077003179 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 491077003180 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 491077003181 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 491077003182 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 491077003183 Uncharacterized conserved protein [Function unknown]; Region: COG2461 491077003184 ApbE family; Region: ApbE; cl00643 491077003185 potential frameshift: common BLAST hit: gi|148543586|ref|YP_001270956.1| transposase, IS4 family protein 491077003186 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 491077003187 potential frameshift: common BLAST hit: gi|148543586|ref|YP_001270956.1| transposase, IS4 family protein 491077003188 Transposase domain (DUF772); Region: DUF772; cl12084 491077003189 T-box leader; HMPREF0538_nc20029 491077003190 seryl-tRNA synthetase; Provisional; Region: PRK05431 491077003191 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 491077003192 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 491077003193 dimer interface [polypeptide binding]; other site 491077003194 active site 491077003195 motif 1; other site 491077003196 motif 2; other site 491077003197 motif 3; other site 491077003198 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003199 Integrase core domain; Region: rve; cl01316 491077003200 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...; Region: PBPb; cd00134 491077003201 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491077003202 substrate binding pocket [chemical binding]; other site 491077003203 membrane-bound complex binding site; other site 491077003204 hinge residues; other site 491077003205 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...; Region: TM_PBP2; cd06261 491077003206 dimer interface [polypeptide binding]; other site 491077003207 conserved gate region; other site 491077003208 putative PBP binding loops; other site 491077003209 ABC-ATPase subunit interface; other site 491077003210 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491077003211 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 491077003212 Walker A/P-loop; other site 491077003213 ATP binding site [chemical binding]; other site 491077003214 Q-loop/lid; other site 491077003215 ABC transporter signature motif; other site 491077003216 Walker B; other site 491077003217 D-loop; other site 491077003218 H-loop/switch region; other site 491077003219 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 491077003220 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 491077003221 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 491077003222 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 491077003223 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 491077003224 active site 491077003225 tetramer interface [polypeptide binding]; other site 491077003226 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08293 491077003227 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 491077003228 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 491077003229 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 491077003230 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 491077003231 ParB-like partition proteins; Region: parB_part; TIGR00180 491077003232 ParB-like nuclease domain; Region: ParBc; cl02129 491077003233 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 491077003234 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...; Region: ParA; cd02042 491077003235 P-loop; other site 491077003236 Magnesium ion binding site [ion binding]; other site 491077003237 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...; Region: ParA; cd02042 491077003238 Magnesium ion binding site [ion binding]; other site 491077003239 ParB-like partition proteins; Region: parB_part; TIGR00180 491077003240 ParB-like nuclease domain; Region: ParBc; cl02129 491077003241 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 491077003242 GTP-binding protein YchF; Reviewed; Region: PRK09601 491077003243 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 491077003244 G1 box; other site 491077003245 GTP/Mg2+ binding site [chemical binding]; other site 491077003246 Switch I region; other site 491077003247 G2 box; other site 491077003248 Switch II region; other site 491077003249 G3 box; other site 491077003250 G4 box; other site 491077003251 G5 box; other site 491077003252 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 491077003253 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 491077003254 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 491077003255 intersubunit interface [polypeptide binding]; other site 491077003256 active site 491077003257 catalytic residue [active] 491077003258 Sulfatase; Region: Sulfatase; cl10460 491077003259 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 491077003260 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 491077003261 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 491077003262 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 491077003263 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 491077003264 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 491077003265 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 491077003266 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 491077003267 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...; Region: Sigma70_r4; cd06171 491077003268 DNA binding residues [nucleotide binding] 491077003269 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 491077003270 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK06843 491077003271 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...; Region: IMPDH; cd00381 491077003272 active site 491077003273 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491077003274 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 491077003275 active site 491077003276 phosphorylation site [posttranslational modification] 491077003277 intermolecular recognition site; other site 491077003278 dimerization interface [polypeptide binding]; other site 491077003279 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...; Region: trans_reg_C; cd00383 491077003280 DNA binding site [nucleotide binding] 491077003281 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 491077003282 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 trans-...; Region: HisKA; cd00082 491077003283 dimer interface [polypeptide binding]; other site 491077003284 phosphorylation site [posttranslational modification] 491077003285 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 491077003286 ATP binding site [chemical binding]; other site 491077003287 Mg2+ binding site [ion binding]; other site 491077003288 G-X-G motif; other site 491077003289 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003290 Integrase core domain; Region: rve; cl01316 491077003291 AzlC protein; Region: AzlC; cl00570 491077003292 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 491077003293 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491077003294 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077003295 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 491077003296 dimerization interface [polypeptide binding]; other site 491077003297 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 491077003298 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 491077003299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077003300 dihydroorotase; Validated; Region: pyrC; PRK09357 491077003301 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...; Region: metallo-dependent_hydrolases; cl00281 491077003302 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C...; Region: DHOase_IIa; cd01317 491077003303 active site 491077003304 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 491077003305 Dihydroorotate dehydrogenase (DHOD) class 1B 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 precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 491077003306 heterodimer interface [polypeptide binding]; other site 491077003307 active site 491077003308 FMN binding site [chemical binding]; other site 491077003309 homodimer interface [polypeptide binding]; other site 491077003310 substrate binding site [chemical binding]; other site 491077003311 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 491077003312 active site 491077003313 dimer interface [polypeptide binding]; other site 491077003314 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 491077003315 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; cl11391 491077003316 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 491077003317 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 491077003318 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 491077003319 S-adenosylmethionine binding site [chemical binding]; other site 491077003320 Domain of unknown function DUF20; Region: UPF0118; cl00465 491077003321 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 491077003322 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 491077003323 Potassium binding sites [ion binding]; other site 491077003324 Cesium cation binding sites [ion binding]; other site 491077003325 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077003326 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077003327 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003328 Integrase core domain; Region: rve; cl01316 491077003329 acetolactate synthase; Reviewed; Region: PRK08617 491077003330 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 491077003331 PYR/PP interface [polypeptide binding]; other site 491077003332 dimer interface [polypeptide binding]; other site 491077003333 TPP binding site [chemical binding]; other site 491077003334 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 491077003335 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...; Region: TPP_enzymes; cl01629 491077003336 TPP-binding site [chemical binding]; other site 491077003337 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 491077003338 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491077003339 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491077003340 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 491077003341 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants...; Region: Thr-synth_2; cd01560 491077003342 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077003343 catalytic residue [active] 491077003344 homoserine dehydrogenase; Provisional; Region: PRK06349 491077003345 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077003346 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 491077003347 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair; cl09141 491077003348 homoserine kinase; Provisional; Region: PRK01212 491077003349 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 491077003350 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 491077003351 AIR carboxylase; Region: AIRC; cl00310 491077003352 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 491077003353 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 491077003354 adenylosuccinate lyase; Provisional; Region: PRK07492 491077003355 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 491077003356 tetramer interface [polypeptide binding]; other site 491077003357 active site 491077003358 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 491077003359 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 491077003360 ATP binding site [chemical binding]; other site 491077003361 active site 491077003362 substrate binding site [chemical binding]; other site 491077003363 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 491077003364 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 491077003365 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 491077003366 putative active site [active] 491077003367 catalytic triad [active] 491077003368 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 491077003369 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP...; Region: PurL_repeat1; cd02203 491077003370 dimerization interface [polypeptide binding]; other site 491077003371 ATP binding site [chemical binding]; other site 491077003372 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP...; Region: PurL_repeat2; cd02204 491077003373 dimerization interface [polypeptide binding]; other site 491077003374 ATP binding site [chemical binding]; other site 491077003375 amidophosphoribosyltransferase; Provisional; Region: PRK07272 491077003376 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 491077003377 active site 491077003378 tetramer interface [polypeptide binding]; other site 491077003379 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 491077003380 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 491077003381 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine...; Region: PurM; cd02196 491077003382 dimerization interface [polypeptide binding]; other site 491077003383 putative ATP binding site [chemical binding]; other site 491077003384 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 491077003385 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 491077003386 active site 491077003387 substrate binding site [chemical binding]; other site 491077003388 cosubstrate binding site; other site 491077003389 catalytic site [active] 491077003390 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 491077003391 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 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 491077003392 purine monophosphate binding site [chemical binding]; other site 491077003393 dimer interface [polypeptide binding]; other site 491077003394 putative catalytic residues [active] 491077003395 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 491077003396 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 491077003397 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 491077003398 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 491077003399 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 491077003400 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 491077003401 Uncharacterised protein family (UPF0236); Region: UPF0236; pfam06782 491077003402 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 491077003403 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 491077003404 catalytic core [active] 491077003405 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 491077003406 Protein of unknown function (DUF975); Region: DUF975; cl10504 491077003407 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 491077003408 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 491077003409 active site 491077003410 HIGH motif; other site 491077003411 dimer interface [polypeptide binding]; other site 491077003412 KMSKS motif; other site 491077003413 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 491077003414 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 491077003415 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 491077003416 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 491077003417 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 491077003418 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 491077003419 Fic/DOC family; Region: Fic; cl00960 491077003420 TIGR02687 family protein; Region: TIGR02687 491077003421 PglZ domain; Region: PglZ; pfam08665 491077003422 putative transposase OrfB; Reviewed; Region: PHA02517 491077003423 Integrase core domain; Region: rve; cl01316 491077003424 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 491077003425 non-specific DNA binding site [nucleotide binding]; other site 491077003426 salt bridge; other site 491077003427 sequence-specific DNA binding site [nucleotide binding]; other site 491077003428 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 491077003429 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 491077003430 hypothetical protein; Provisional; Region: PRK11281 491077003431 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077003432 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077003433 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 491077003434 catalytic residues [active] 491077003435 catalytic nucleophile [active] 491077003436 Presynaptic Site I dimer interface [polypeptide binding]; other site 491077003437 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 491077003438 Synaptic Flat tetramer interface [polypeptide binding]; other site 491077003439 Synaptic Site I dimer interface [polypeptide binding]; other site 491077003440 DNA binding site [nucleotide binding] 491077003441 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077003442 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 491077003443 DNA binding site [nucleotide binding] 491077003444 Int/Topo IB signature motif; other site 491077003445 active site 491077003446 Fic family protein [Function unknown]; Region: COG3177 491077003447 Fic/DOC family; Region: Fic; cl00960 491077003448 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003449 Integrase core domain; Region: rve; cl01316 491077003450 VanZ like family; Region: VanZ; cl01971 491077003451 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491077003452 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077003453 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 491077003454 dimerization interface [polypeptide binding]; other site 491077003455 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 491077003456 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003457 Integrase core domain; Region: rve; cl01316 491077003458 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077003459 NAD(P) binding site [chemical binding]; other site 491077003460 active site 491077003461 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 491077003462 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 491077003463 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; cl09110 491077003464 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 491077003465 Cation efflux family; Region: Cation_efflux; cl00316 491077003466 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 491077003467 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 491077003468 Phosphate-starvation-inducible E; Region: PsiE; cl01264 491077003469 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 491077003470 substrate binding site [chemical binding]; other site 491077003471 dimer interface [polypeptide binding]; other site 491077003472 catalytic triad [active] 491077003473 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003474 Integrase core domain; Region: rve; cl01316 491077003475 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...; Region: Aldo_ket_red; cd06660 491077003476 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491077003477 active site 491077003478 catalytic tetrad [active] 491077003479 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 491077003480 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 491077003481 putative homodimer interface [polypeptide binding]; other site 491077003482 putative active site [active] 491077003483 catalytic site [active] 491077003484 DEAD-like helicases superfamily; Region: DEXDc; smart00487 491077003485 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 491077003486 ATP binding site [chemical binding]; other site 491077003487 putative Mg++ binding site [ion binding]; other site 491077003488 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 491077003489 nucleotide binding region [chemical binding]; other site 491077003490 ATP-binding site [chemical binding]; other site 491077003491 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 491077003492 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 491077003493 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077003494 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 491077003495 DNA polymerase III subunit epsilon; Validated; Region: PRK06310 491077003496 Zinc-dependent metalloprotease, MMP_like subfamily. This group contains matrix metalloproteinases (MMPs), serralysins, and the astacin_like family of proteases; Region: ZnMc_MMP_like; cd04268 491077003497 active site 491077003498 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 491077003499 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 491077003500 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; cl11391 491077003501 Sulfatase; Region: Sulfatase; cl10460 491077003502 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 491077003503 potential frameshift: common BLAST hit: gi|148543419|ref|YP_001270789.1| 3-beta hydroxysteroid dehydrogenase/isomerase 491077003504 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077003505 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077003506 NAD(P) binding site [chemical binding]; other site 491077003507 active site 491077003508 Predicted transcriptional regulator [Transcription]; Region: COG1959 491077003509 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077003510 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 491077003511 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 491077003512 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...; Region: TM_PBP2; cl00427 491077003513 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491077003514 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...; Region: ABC_OpuCA_Osmoprotection; cd03295 491077003515 Walker A/P-loop; other site 491077003516 ATP binding site [chemical binding]; other site 491077003517 Q-loop/lid; other site 491077003518 ABC transporter signature motif; other site 491077003519 Walker B; other site 491077003520 D-loop; other site 491077003521 H-loop/switch region; other site 491077003522 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...; Region: TM_PBP2; cl00427 491077003523 SelR domain; Region: SelR; cl00369 491077003524 potential frameshift: common BLAST hit: gi|148543426|ref|YP_001270796.1| chloride channel, core 491077003525 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-...; Region: EriC; cd01031 491077003526 Cl- selectivity filter; other site 491077003527 Cl- binding residues [ion binding]; other site 491077003528 pore gating glutamate residue; other site 491077003529 H+/Cl- coupling transport residue; other site 491077003530 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003531 Integrase core domain; Region: rve; cl01316 491077003532 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 491077003533 metal binding site [ion binding]; metal-binding site 491077003534 dimer interface [polypeptide binding]; other site 491077003535 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...; Region: TM_PBP2; cl00427 491077003536 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein; Region: ABC_MetN_methionine_transporter; cd03258 491077003537 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 491077003538 Walker A/P-loop; other site 491077003539 ATP binding site [chemical binding]; other site 491077003540 Q-loop/lid; other site 491077003541 ABC transporter signature motif; other site 491077003542 Walker B; other site 491077003543 D-loop; other site 491077003544 H-loop/switch region; other site 491077003545 NIL domain; Region: NIL; cl09633 491077003546 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 491077003547 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077003548 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077003549 putative active site [active] 491077003550 putative NTP binding site [chemical binding]; other site 491077003551 putative nucleic acid binding site [nucleotide binding]; other site 491077003552 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077003553 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 491077003554 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491077003555 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 491077003556 NAD binding site [chemical binding]; other site 491077003557 dimer interface [polypeptide binding]; other site 491077003558 substrate binding site [chemical binding]; other site 491077003559 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 491077003560 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491077003561 putative substrate translocation pore; other site 491077003562 FMN-binding domain; Region: FMN_bind; cl01081 491077003563 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 491077003564 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 491077003565 minor groove reading motif; other site 491077003566 helix-hairpin-helix signature motif; other site 491077003567 substrate binding pocket [chemical binding]; other site 491077003568 active site 491077003569 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 491077003570 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 491077003571 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 491077003572 4-aminobutyrate aminotransferase; Provisional; Region: PRK08593 491077003573 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 491077003574 inhibitor-cofactor binding pocket; inhibition site 491077003575 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077003576 catalytic residue [active] 491077003577 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 491077003578 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 491077003579 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 491077003580 UvrD/REP helicase; Region: UvrD-helicase; cl14126 491077003581 UvrD/REP helicase; Region: UvrD-helicase; cl14126 491077003582 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 491077003583 active site 491077003584 multimer interface [polypeptide binding]; other site 491077003585 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 491077003586 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 491077003587 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 491077003588 active site 491077003589 HIGH motif; other site 491077003590 dimer interface [polypeptide binding]; other site 491077003591 KMSKS motif; other site 491077003592 exopolyphosphatase; Region: exo_poly_only; TIGR03706 491077003593 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 491077003594 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 491077003595 homodimer interface [polypeptide binding]; other site 491077003596 NAD binding site [chemical binding]; other site 491077003597 catalytic residues [active] 491077003598 substrate binding pocket [chemical binding]; other site 491077003599 flexible flap; other site 491077003600 SIR2H: Uncharacterized prokaryotic Sir2 homologs from several gram positive bacterial species and Fusobacteria; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone...; Region: SIR2H; cd01411 491077003601 NAD+ binding site [chemical binding]; other site 491077003602 substrate binding site [chemical binding]; other site 491077003603 putative Zn binding site [ion binding]; other site 491077003604 Protein of unknown function DUF72; Region: DUF72; cl00777 491077003605 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 491077003606 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 491077003607 HIGH motif; other site 491077003608 active site 491077003609 KMSKS motif; other site 491077003610 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 491077003611 tRNA binding surface [nucleotide binding]; other site 491077003612 anticodon binding site; other site 491077003613 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 491077003614 dimer interface [polypeptide binding]; other site 491077003615 putative tRNA-binding site [nucleotide binding]; other site 491077003616 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 491077003617 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 491077003618 active site 491077003619 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 491077003620 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in...; Region: TOPRIM_RNase_M5_like; cd01027 491077003621 putative active site [active] 491077003622 putative metal binding site [ion binding]; other site 491077003623 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 491077003624 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 491077003625 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 491077003626 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 491077003627 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 491077003628 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003629 Integrase core domain; Region: rve; cl01316 491077003630 Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: TroA_b; cd01020 491077003631 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 491077003632 metal binding site [ion binding]; metal-binding site 491077003633 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 491077003634 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 iron-...; Region: ABC_Metallic_Cations; cd03235 491077003635 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...; Region: TM_ABC_iron-siderophores_like; cl00462 491077003636 pur operon repressor; Provisional; Region: PRK09213 491077003637 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 491077003638 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 491077003639 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 491077003640 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 491077003641 Substrate binding site [chemical binding]; other site 491077003642 Mg++ binding site [ion binding]; other site 491077003643 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 491077003644 active site 491077003645 substrate binding site [chemical binding]; other site 491077003646 CoA binding site [chemical binding]; other site 491077003647 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 491077003648 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 491077003649 sugar phosphate phosphatase; Provisional; Region: PRK10513 491077003650 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 491077003651 active site 491077003652 motif I; other site 491077003653 motif II; other site 491077003654 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; cl11391 491077003655 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 491077003656 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 491077003657 Zn2+ binding site [ion binding]; other site 491077003658 Mg2+ binding site [ion binding]; other site 491077003659 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 491077003660 potential frameshift: common BLAST hit: gi|184154171|ref|YP_001842512.1| transposase 491077003661 Transposase IS200 like; Region: Y1_Tnp; cl00848 491077003662 Transposase IS200 like; Region: Y1_Tnp; cl00848 491077003663 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077003664 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077003665 Probable transposase; Region: OrfB_IS605; pfam01385 491077003666 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 491077003667 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 491077003668 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 491077003669 CTP synthetase; Validated; Region: pyrG; PRK05380 491077003670 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...; Region: CTGs; cd03113 491077003671 Catalytic site [active] 491077003672 Active site [active] 491077003673 UTP binding site [chemical binding]; other site 491077003674 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 491077003675 active site 491077003676 putative oxyanion hole; other site 491077003677 catalytic triad [active] 491077003678 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 491077003679 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 491077003680 hinge; other site 491077003681 active site 491077003682 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 491077003683 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 491077003684 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; cl14892 491077003685 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the...; Region: Sortase_A_1; cd06165 491077003686 active site 491077003687 catalytic site [active] 491077003688 phosphoenolpyruvate synthase; Validated; Region: PRK06464 491077003689 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 491077003690 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 491077003691 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 491077003692 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 491077003693 substrate binding site [chemical binding]; other site 491077003694 dimer interface [polypeptide binding]; other site 491077003695 catalytic triad [active] 491077003696 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose...; Region: TBP_aldolase_IIB; cd00947 491077003697 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 491077003698 intersubunit interface [polypeptide binding]; other site 491077003699 active site 491077003700 zinc binding site [ion binding]; other site 491077003701 Na+ binding site [ion binding]; other site 491077003702 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 491077003703 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 491077003704 catalytic core [active] 491077003705 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 491077003706 Low molecular weight phosphatase family; Region: LMWPc; cd00115 491077003707 Active site [active] 491077003708 LemA family; Region: LemA; cl00742 491077003709 Peptidase family M48; Region: Peptidase_M48; cl12018 491077003710 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 491077003711 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 491077003712 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491077003713 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 491077003714 helicase 45; Provisional; Region: PTZ00424 491077003715 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 491077003716 ATP binding site [chemical binding]; other site 491077003717 Mg++ binding site [ion binding]; other site 491077003718 motif III; other site 491077003719 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 491077003720 nucleotide binding region [chemical binding]; other site 491077003721 ATP-binding site [chemical binding]; other site 491077003722 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003723 Integrase core domain; Region: rve; cl01316 491077003724 Glutaminase; Region: Glutaminase; cl00907 491077003725 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 491077003726 DltD N-terminal region; Region: DltD_N; pfam04915 491077003727 DltD central region; Region: DltD_M; pfam04918 491077003728 DltD C-terminal region; Region: DltD_C; pfam04914 491077003729 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087; cl07963 491077003730 MBOAT family; Region: MBOAT; cl00738 491077003731 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 491077003732 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 491077003733 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 491077003734 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 491077003735 alanine racemase; Reviewed; Region: alr; PRK00053 491077003736 active site 491077003737 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 491077003738 dimer interface [polypeptide binding]; other site 491077003739 substrate binding site [chemical binding]; other site 491077003740 catalytic residues [active] 491077003741 PemK-like protein; Region: PemK; cl00995 491077003742 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 491077003743 Sodium:solute symporter family; Region: SSF; cl00456 491077003744 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and...; Region: Bact_CD; cd01293 491077003745 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 491077003746 active site 491077003747 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 491077003748 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 491077003749 putative active site [active] 491077003750 catalytic residue [active] 491077003751 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 491077003752 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 491077003753 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 491077003754 ATP binding site [chemical binding]; other site 491077003755 putative Mg++ binding site [ion binding]; other site 491077003756 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 491077003757 nucleotide binding region [chemical binding]; other site 491077003758 ATP-binding site [chemical binding]; other site 491077003759 TRCF domain; Region: TRCF; cl04088 491077003760 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 491077003761 Septum formation initiator; Region: DivIC; cl11433 491077003762 hypothetical protein; Provisional; Region: PRK08582 491077003763 S1_RPS1_repeat_hs4: 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_hs4; cd05692 491077003764 RNA binding site [nucleotide binding]; other site 491077003765 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 491077003766 Ligand Binding Site [chemical binding]; other site 491077003767 B3/4 domain; Region: B3_4; cl11458 491077003768 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 491077003769 FtsH Extracellular; Region: FtsH_ext; pfam06480 491077003770 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 491077003771 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...; Region: AAA; cd00009 491077003772 Walker A motif; other site 491077003773 ATP binding site [chemical binding]; other site 491077003774 Walker B motif; other site 491077003775 arginine finger; other site 491077003776 Peptidase family M41; Region: Peptidase_M41; pfam01434 491077003777 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 491077003778 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 491077003779 dimerization interface [polypeptide binding]; other site 491077003780 domain crossover interface; other site 491077003781 redox-dependent activation switch; other site 491077003782 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 491077003783 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...; Region: DUS_like_FMN; cd02801 491077003784 FMN binding site [chemical binding]; other site 491077003785 active site 491077003786 catalytic residues [active] 491077003787 substrate binding site [chemical binding]; other site 491077003788 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 491077003789 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-...; Region: LysRS_N; cd04322 491077003790 dimer interface [polypeptide binding]; other site 491077003791 putative anticodon binding site; other site 491077003792 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 491077003793 motif 1; other site 491077003794 active site 491077003795 motif 2; other site 491077003796 motif 3; other site 491077003797 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003798 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 491077003799 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077003800 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 491077003801 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077003802 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077003803 putative active site [active] 491077003804 putative NTP binding site [chemical binding]; other site 491077003805 putative nucleic acid binding site [nucleotide binding]; other site 491077003806 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077003807 Integrase core domain; Region: rve; cl01316 491077003808 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003809 Integrase core domain; Region: rve; cl01316 491077003810 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077003811 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 491077003812 catalytic residues [active] 491077003813 catalytic nucleophile [active] 491077003814 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077003815 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 491077003816 catalytic residues [active] 491077003817 catalytic nucleophile [active] 491077003818 Presynaptic Site I dimer interface [polypeptide binding]; other site 491077003819 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 491077003820 Synaptic Flat tetramer interface [polypeptide binding]; other site 491077003821 Synaptic Site I dimer interface [polypeptide binding]; other site 491077003822 DNA binding site [nucleotide binding] 491077003823 Phage associated DNA primase [General function prediction only]; Region: COG3378 491077003824 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 491077003825 Protein of unknown function (DUF507); Region: DUF507; cl01112 491077003826 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 491077003827 Phage integrase family; Region: Phage_integrase; pfam00589 491077003828 Int/Topo IB signature motif; other site 491077003829 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077003830 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077003831 putative active site [active] 491077003832 putative NTP binding site [chemical binding]; other site 491077003833 putative nucleic acid binding site [nucleotide binding]; other site 491077003834 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077003835 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 491077003836 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...; Region: AAA; cd00009 491077003837 Walker A motif; other site 491077003838 ATP binding site [chemical binding]; other site 491077003839 Walker B motif; other site 491077003840 arginine finger; other site 491077003841 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 491077003842 Integrase core domain; Region: rve; cl01316 491077003843 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 491077003844 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 491077003845 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 491077003846 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 491077003847 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 491077003848 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 491077003849 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 491077003850 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 491077003851 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 491077003852 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491077003853 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 491077003854 putative substrate translocation pore; other site 491077003855 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 491077003856 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 491077003857 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 491077003858 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; cl09110 491077003859 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 491077003860 aspartate racemase; Region: asp_race; TIGR00035 491077003861 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 491077003862 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 491077003863 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491077003864 DNA-binding site [nucleotide binding]; DNA binding site 491077003865 UTRA domain; Region: UTRA; cl01230 491077003866 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 491077003867 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...; Region: NAPRTase_A; cd01570 491077003868 active site 491077003869 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 491077003870 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...; Region: NAD_synthase; cd00553 491077003871 homodimer interface [polypeptide binding]; other site 491077003872 NAD binding pocket [chemical binding]; other site 491077003873 ATP binding pocket [chemical binding]; other site 491077003874 Mg binding site [ion binding]; other site 491077003875 active-site loop [active] 491077003876 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 491077003877 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 491077003878 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 491077003879 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 491077003880 RNA binding site [nucleotide binding]; other site 491077003881 hypothetical protein; Provisional; Region: PRK04351 491077003882 SprT homologues; Region: SprT; cl01182 491077003883 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077003884 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077003885 putative active site [active] 491077003886 putative NTP binding site [chemical binding]; other site 491077003887 putative nucleic acid binding site [nucleotide binding]; other site 491077003888 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077003889 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 491077003890 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 491077003891 domain; Region: Glyco_hydro_2; pfam00703 491077003892 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 491077003893 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 491077003894 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 491077003895 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 491077003896 catalytic core [active] 491077003897 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 491077003898 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 491077003899 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 491077003900 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 491077003901 homodimer interface [polypeptide binding]; other site 491077003902 substrate-cofactor binding pocket; other site 491077003903 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077003904 catalytic residue [active] 491077003905 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491077003906 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...; Region: TM_PBP2; cd06261 491077003907 dimer interface [polypeptide binding]; other site 491077003908 conserved gate region; other site 491077003909 putative PBP binding loops; other site 491077003910 ABC-ATPase subunit interface; other site 491077003911 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077003912 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491077003913 Walker A/P-loop; other site 491077003914 ATP binding site [chemical binding]; other site 491077003915 Q-loop/lid; other site 491077003916 ABC transporter signature motif; other site 491077003917 Walker B; other site 491077003918 D-loop; other site 491077003919 H-loop/switch region; other site 491077003920 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 491077003921 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...; Region: PBPb; cd00134 491077003922 substrate binding pocket [chemical binding]; other site 491077003923 membrane-bound complex binding site; other site 491077003924 hinge residues; other site 491077003925 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH...; Region: Peptidase_C1B; cd00585 491077003926 trimer interface [polypeptide binding]; other site 491077003927 active site 491077003928 G bulge; other site 491077003929 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 491077003930 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491077003931 active site 491077003932 dimer interface [polypeptide binding]; other site 491077003933 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491077003934 Coenzyme A binding pocket [chemical binding]; other site 491077003935 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 491077003936 trimer interface [polypeptide binding]; other site 491077003937 active site 491077003938 DNA repair protein RadA; Provisional; Region: PRK11823 491077003939 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 491077003940 Walker A motif/ATP binding site; other site 491077003941 ATP binding site [chemical binding]; other site 491077003942 Walker B motif; other site 491077003943 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 491077003944 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 491077003945 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 491077003946 putative active site [active] 491077003947 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 491077003948 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 491077003949 active site 491077003950 HIGH motif; other site 491077003951 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 491077003952 KMSKS motif; other site 491077003953 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 491077003954 tRNA binding surface [nucleotide binding]; other site 491077003955 anticodon binding site; other site 491077003956 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 post-...; Region: RIBOc; cl00258 491077003957 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 491077003958 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 491077003959 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 491077003960 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 491077003961 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 491077003962 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 491077003963 putative homodimer interface [polypeptide binding]; other site 491077003964 KOW motif; Region: KOW; cl00354 491077003965 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 491077003966 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 491077003967 23S rRNA interface [nucleotide binding]; other site 491077003968 L7/L12 interface [polypeptide binding]; other site 491077003969 putative thiostrepton binding site; other site 491077003970 L25 interface [polypeptide binding]; other site 491077003971 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...; Region: Ribosomal_L1; cd00403 491077003972 mRNA/rRNA interface [nucleotide binding]; other site 491077003973 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 491077003974 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077003975 homodimer interface [polypeptide binding]; other site 491077003976 catalytic residue [active] 491077003977 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003978 Integrase core domain; Region: rve; cl01316 491077003979 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues...; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 491077003980 homodimer interface [polypeptide binding]; other site 491077003981 active site 491077003982 Ribosomal protein L10 leader; HMPREF0538_nc20037 491077003983 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...; Region: Ribosomal_L10; cd05797 491077003984 23S rRNA interface [nucleotide binding]; other site 491077003985 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 491077003986 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 491077003987 peripheral dimer interface [polypeptide binding]; other site 491077003988 core dimer interface [polypeptide binding]; other site 491077003989 L10 interface [polypeptide binding]; other site 491077003990 L11 interface [polypeptide binding]; other site 491077003991 putative EF-Tu interaction site [polypeptide binding]; other site 491077003992 putative EF-G interaction site [polypeptide binding]; other site 491077003993 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 491077003994 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077003995 Protein of unknown function (DUF1700); Region: DUF1700; cl01933 491077003996 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 491077003997 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 491077003998 putative catalytic cysteine [active] 491077003999 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 491077004000 putative active site [active] 491077004001 metal binding site [ion binding]; metal-binding site 491077004002 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 491077004003 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 491077004004 dimer interface [polypeptide binding]; other site 491077004005 putative radical transfer pathway; other site 491077004006 diiron center [ion binding]; other site 491077004007 tyrosyl radical; other site 491077004008 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 491077004009 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 491077004010 Class I ribonucleotide reductase; Region: RNR_I; cd01679 491077004011 active site 491077004012 dimer interface [polypeptide binding]; other site 491077004013 catalytic residues [active] 491077004014 effector binding site; other site 491077004015 R2 peptide binding site; other site 491077004016 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...; Region: NrdH; cd02976 491077004017 catalytic residues [active] 491077004018 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 491077004019 nucleoside/Zn binding site; other site 491077004020 dimer interface [polypeptide binding]; other site 491077004021 catalytic motif [active] 491077004022 Transposase IS200 like; Region: Y1_Tnp; cl00848 491077004023 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077004024 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077004025 Probable transposase; Region: OrfB_IS605; pfam01385 491077004026 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 491077004027 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 491077004028 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...; Region: AAA; cd00009 491077004029 Walker A motif; other site 491077004030 ATP binding site [chemical binding]; other site 491077004031 Walker B motif; other site 491077004032 arginine finger; other site 491077004033 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 491077004034 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 491077004035 recombination protein RecR; Reviewed; Region: recR; PRK00076 491077004036 RecR protein; Region: RecR; pfam02132 491077004037 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 491077004038 putative active site [active] 491077004039 putative metal-binding site [ion binding]; other site 491077004040 tetramer interface [polypeptide binding]; other site 491077004041 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 491077004042 thymidylate kinase; Validated; Region: tmk; PRK00698 491077004043 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...; Region: TMPK; cd01672 491077004044 TMP-binding site; other site 491077004045 ATP-binding site [chemical binding]; other site 491077004046 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl00412 491077004047 DNA polymerase III subunit delta'; Validated; Region: PRK08058 491077004048 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077004049 Protein of unknown function (DUF972); Region: DUF972; cl01853 491077004050 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 491077004051 Predicted methyltransferases [General function prediction only]; Region: COG0313 491077004052 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 491077004053 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...; Region: 4HBT; cd00586 491077004054 active site 491077004055 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...; Region: 4HBT; cd00586 491077004056 active site 491077004057 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 491077004058 Polyphosphate kinase; Region: PP_kinase; pfam02503 491077004059 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 491077004060 putative domain interface [polypeptide binding]; other site 491077004061 putative active site [active] 491077004062 catalytic site [active] 491077004063 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 491077004064 putative domain interface [polypeptide binding]; other site 491077004065 putative active site [active] 491077004066 catalytic site [active] 491077004067 exopolyphosphatase; Region: exo_poly_only; TIGR03706 491077004068 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 491077004069 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 491077004070 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 491077004071 NAD binding site [chemical binding]; other site 491077004072 homodimer interface [polypeptide binding]; other site 491077004073 active site 491077004074 substrate binding site [chemical binding]; other site 491077004075 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 491077004076 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 491077004077 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491077004078 Coenzyme A binding pocket [chemical binding]; other site 491077004079 UGMP family protein; Validated; Region: PRK09604 491077004080 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 491077004081 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 491077004082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077004083 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 491077004084 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 491077004085 putative catalytic cysteine [active] 491077004086 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 491077004087 nucleotide binding site [chemical binding]; other site 491077004088 homotetrameric interface [polypeptide binding]; other site 491077004089 putative phosphate binding site [ion binding]; other site 491077004090 putative allosteric binding site; other site 491077004091 T-box leader; HMPREF0538_nc20039 491077004092 Predicted amidohydrolase [General function prediction only]; Region: COG0388 491077004093 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 491077004094 putative active site [active] 491077004095 catalytic triad [active] 491077004096 putative dimer interface [polypeptide binding]; other site 491077004097 aspartate aminotransferase; Provisional; Region: PRK07681 491077004098 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 491077004099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077004100 homodimer interface [polypeptide binding]; other site 491077004101 catalytic residue [active] 491077004102 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 491077004103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077004104 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 491077004105 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 491077004106 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077004107 Walker A/P-loop; other site 491077004108 ATP binding site [chemical binding]; other site 491077004109 Q-loop/lid; other site 491077004110 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...; Region: ABCF_EF-3; cd03221 491077004111 ABC transporter signature motif; other site 491077004112 Walker B; other site 491077004113 D-loop; other site 491077004114 ABC transporter; Region: ABC_tran_2; pfam12848 491077004115 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...; Region: ABCF_EF-3; cd03221 491077004116 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 491077004117 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 491077004118 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 491077004119 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077004120 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...; Region: cpn10; cd00320 491077004121 oligomerisation interface [polypeptide binding]; other site 491077004122 mobile loop; other site 491077004123 roof hairpin; other site 491077004124 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 491077004125 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 491077004126 ring oligomerisation interface [polypeptide binding]; other site 491077004127 ATP/Mg binding site [chemical binding]; other site 491077004128 stacking interactions; other site 491077004129 hinge regions; other site 491077004130 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 491077004131 putative deacylase active site [active] 491077004132 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 491077004133 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 491077004134 K+ potassium transporter; Region: K_trans; cl01227 491077004135 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077004136 potential frameshift: common BLAST hit: gi|148543596|ref|YP_001270966.1| major facilitator transporter 491077004137 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 491077004138 putative substrate translocation pore; other site 491077004139 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004140 Integrase core domain; Region: rve; cl01316 491077004141 Uncharacterized conserved protein [Function unknown]; Region: COG1739 491077004142 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 491077004143 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 491077004144 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 491077004145 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 491077004146 ATP binding site [chemical binding]; other site 491077004147 putative Mg++ binding site [ion binding]; other site 491077004148 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 491077004149 nucleotide binding region [chemical binding]; other site 491077004150 ATP-binding site [chemical binding]; other site 491077004151 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 491077004152 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 491077004153 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 491077004154 30S subunit binding site; other site 491077004155 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12906 491077004156 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 491077004157 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 491077004158 nucleotide binding region [chemical binding]; other site 491077004159 ATP-binding site [chemical binding]; other site 491077004160 peptide chain release factor 2; Provisional; Region: PRK05589 491077004161 RF-1 domain; Region: RF-1; cl02875 491077004162 RF-1 domain; Region: RF-1; cl02875 491077004163 PspC domain; Region: PspC; cl00864 491077004164 Membrane protein of unknown function; Region: DUF360; cl00850 491077004165 DRTGG domain; Region: DRTGG; cl12147 491077004166 HPr kinase/phosphorylase; Provisional; Region: PRK05428 491077004167 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-...; Region: HprK_C; cd01918 491077004168 Hpr binding site; other site 491077004169 active site 491077004170 homohexamer subunit interaction site [polypeptide binding]; other site 491077004171 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 491077004172 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 491077004173 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077004174 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 491077004175 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 491077004176 active site 491077004177 tetramer interface [polypeptide binding]; other site 491077004178 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 491077004179 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 491077004180 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 491077004181 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 491077004182 Cysteine-rich domain; Region: CCG; pfam02754 491077004183 Cysteine-rich domain; Region: CCG; pfam02754 491077004184 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 491077004185 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077004186 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077004187 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 491077004188 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 491077004189 metal binding site [ion binding]; metal-binding site 491077004190 dimer interface [polypeptide binding]; other site 491077004191 T-box leader; HMPREF0538_nc20040 491077004192 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 491077004193 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...; Region: PBPb; cd00134 491077004194 substrate binding pocket [chemical binding]; other site 491077004195 membrane-bound complex binding site; other site 491077004196 hinge residues; other site 491077004197 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain...; Region: BFIT_BACH; cd03442 491077004198 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 491077004199 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 deoxyribose-1-...; Region: PGM2; cd05799 491077004200 active site 491077004201 substrate binding site [chemical binding]; other site 491077004202 metal binding site [ion binding]; metal-binding site 491077004203 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077004204 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077004205 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 491077004206 excinuclease ABC subunit B; Provisional; Region: PRK05298 491077004207 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 491077004208 ATP binding site [chemical binding]; other site 491077004209 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 491077004210 nucleotide binding region [chemical binding]; other site 491077004211 ATP-binding site [chemical binding]; other site 491077004212 Ultra-violet resistance protein B; Region: UvrB; pfam12344 491077004213 UvrB/uvrC motif; Region: UVR; pfam02151 491077004214 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 491077004215 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 491077004216 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 491077004217 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 491077004218 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 491077004219 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077004220 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 491077004221 Uncharacterised protein family UPF0052; Region: UPF0052; pfam01933 491077004222 phosphate binding site [ion binding]; other site 491077004223 putative substrate binding pocket [chemical binding]; other site 491077004224 dimer interface [polypeptide binding]; other site 491077004225 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 491077004226 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 491077004227 potential frameshift: common BLAST hit: gi|184156043|ref|YP_001844383.1| transposase 491077004228 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004229 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004230 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 491077004231 oligomer interface [polypeptide binding]; other site 491077004232 active site residues [active] 491077004233 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 491077004234 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 491077004235 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 491077004236 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 491077004237 substrate binding site [chemical binding]; other site 491077004238 hinge regions; other site 491077004239 ADP binding site [chemical binding]; other site 491077004240 catalytic site [active] 491077004241 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 491077004242 substrate binding site [chemical binding]; other site 491077004243 dimer interface [polypeptide binding]; other site 491077004244 catalytic triad [active] 491077004245 enolase; Provisional; Region: eno; PRK00077 491077004246 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 491077004247 dimer interface [polypeptide binding]; other site 491077004248 metal binding site [ion binding]; metal-binding site 491077004249 substrate binding pocket [chemical binding]; other site 491077004250 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 491077004251 Amino acid permease; Region: AA_permease; pfam00324 491077004252 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-...; Region: EriC; cd01031 491077004253 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 491077004254 Cl- selectivity filter; other site 491077004255 Cl- binding residues [ion binding]; other site 491077004256 pore gating glutamate residue; other site 491077004257 dimer interface [polypeptide binding]; other site 491077004258 H+/Cl- coupling transport residue; other site 491077004259 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; cl09110 491077004260 Preprotein translocase SecG subunit; Region: SecG; cl09123 491077004261 Esterase/lipase [General function prediction only]; Region: COG1647 491077004262 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 491077004263 ribonuclease R; Region: RNase_R; TIGR02063 491077004264 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 491077004265 RNB domain; Region: RNB; pfam00773 491077004266 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an...; Region: S1_RNase_R; cd04471 491077004267 RNA binding site [nucleotide binding]; other site 491077004268 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 491077004269 SmpB-tmRNA interface; other site 491077004270 Scramblase; Region: Scramblase; cl02043 491077004271 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 491077004272 ligand binding site [chemical binding]; other site 491077004273 active site 491077004274 UGI interface [polypeptide binding]; other site 491077004275 catalytic site [active] 491077004276 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 491077004277 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 491077004278 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 491077004279 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491077004280 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 491077004281 Coenzyme A binding pocket [chemical binding]; other site 491077004282 Uncharacterized conserved protein [Function unknown]; Region: COG2461 491077004283 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 491077004284 active site 491077004285 substrate binding site [chemical binding]; other site 491077004286 catalytic site [active] 491077004287 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004288 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 491077004289 FAD binding domain; Region: FAD_binding_4; pfam01565 491077004290 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 491077004291 pfkB family carbohydrate kinase; Region: PfkB; pfam00294 491077004292 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of...; Region: ribokinase; cd01174 491077004293 substrate binding site [chemical binding]; other site 491077004294 dimer interface [polypeptide binding]; other site 491077004295 ATP binding site [chemical binding]; other site 491077004296 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 491077004297 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 491077004298 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 491077004299 putative substrate translocation pore; other site 491077004300 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 491077004301 Uncharacterized conserved protein [Function unknown]; Region: COG1624 491077004302 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 491077004303 YbbR-like protein; Region: YbbR; pfam07949 491077004304 YbbR-like protein; Region: YbbR; pfam07949 491077004305 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 491077004306 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 UDP-N-...; Region: GlmM; cd05802 491077004307 active site 491077004308 substrate binding site [chemical binding]; other site 491077004309 metal binding site [ion binding]; metal-binding site 491077004310 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 491077004311 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...; Region: GFAT; cd00714 491077004312 glutaminase active site [active] 491077004313 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 491077004314 dimer interface [polypeptide binding]; other site 491077004315 active site 491077004316 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 491077004317 dimer interface [polypeptide binding]; other site 491077004318 active site 491077004319 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 491077004320 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 491077004321 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 491077004322 catalytic triad [active] 491077004323 catalytic triad [active] 491077004324 oxyanion hole [active] 491077004325 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077004326 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 491077004327 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 491077004328 active site 491077004329 motif I; other site 491077004330 motif II; other site 491077004331 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 491077004332 putative peptidoglycan binding site; other site 491077004333 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491077004334 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 491077004335 active site 491077004336 phosphorylation site [posttranslational modification] 491077004337 intermolecular recognition site; other site 491077004338 dimerization interface [polypeptide binding]; other site 491077004339 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...; Region: trans_reg_C; cd00383 491077004340 DNA binding site [nucleotide binding] 491077004341 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 491077004342 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 connected by an extended linker. The...; Region: HAMP; cd06225 491077004343 dimerization interface [polypeptide binding]; other site 491077004344 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 trans-...; Region: HisKA; cd00082 491077004345 dimer interface [polypeptide binding]; other site 491077004346 phosphorylation site [posttranslational modification] 491077004347 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 491077004348 ATP binding site [chemical binding]; other site 491077004349 Mg2+ binding site [ion binding]; other site 491077004350 G-X-G motif; other site 491077004351 Sugar transport protein; Region: Sugar_transport; pfam06800 491077004352 maltose O-acetyltransferase; Provisional; Region: PRK10092 491077004353 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 491077004354 active site 491077004355 substrate binding site [chemical binding]; other site 491077004356 trimer interface [polypeptide binding]; other site 491077004357 CoA binding site [chemical binding]; other site 491077004358 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 491077004359 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 491077004360 active site 491077004361 dimer interface [polypeptide binding]; other site 491077004362 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 491077004363 dimer interface [polypeptide binding]; other site 491077004364 active site 491077004365 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004366 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 491077004367 catalytic site [active] 491077004368 metal binding site [ion binding]; metal-binding site 491077004369 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 491077004370 Response regulator receiver domain; Region: Response_reg; pfam00072 491077004371 active site 491077004372 phosphorylation site [posttranslational modification] 491077004373 intermolecular recognition site; other site 491077004374 dimerization interface [polypeptide binding]; other site 491077004375 YcbB domain; Region: YcbB; pfam08664 491077004376 ornithine carbamoyltransferase; Provisional; Region: PRK04284 491077004377 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 491077004378 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077004379 carbamate kinase; Reviewed; Region: PRK12686 491077004380 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 491077004381 putative substrate binding site [chemical binding]; other site 491077004382 nucleotide binding site [chemical binding]; other site 491077004383 nucleotide binding site [chemical binding]; other site 491077004384 homodimer interface [polypeptide binding]; other site 491077004385 EamA-like transporter family; Region: EamA; cl01037 491077004386 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 491077004387 EamA-like transporter family; Region: EamA; cl01037 491077004388 Zinc-dependent metalloprotease, MMP_like subfamily. This group contains matrix metalloproteinases (MMPs), serralysins, and the astacin_like family of proteases; Region: ZnMc_MMP_like; cd04268 491077004389 active site 491077004390 Plastocyanin domain containing protein [General function prediction only]; Region: COG4633 491077004391 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 491077004392 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 491077004393 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; cl11391 491077004394 potential frameshift: common BLAST hit: gi|184153083|ref|YP_001841424.1| Na-H antiporter 491077004395 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 491077004396 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077004397 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077004398 Beta-lactamase; Region: Beta-lactamase; cl01009 491077004399 Amidinotransferase; Region: Amidinotransf; cl12043 491077004400 Arginine deiminase [Amino acid transport and metabolism]; Region: ArcA; COG2235 491077004401 Arginine repressor [Transcription]; Region: ArgR; COG1438 491077004402 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 491077004403 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 491077004404 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 491077004405 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 491077004406 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 491077004407 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004408 Integrase core domain; Region: rve; cl01316 491077004409 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077004410 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077004411 putative active site [active] 491077004412 putative NTP binding site [chemical binding]; other site 491077004413 putative nucleic acid binding site [nucleotide binding]; other site 491077004414 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077004415 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 491077004416 catalytic triad [active] 491077004417 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 491077004418 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491077004419 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 491077004420 Thymidine kinase; Region: TK; cl00631 491077004421 peptide chain release factor 1; Validated; Region: prfA; PRK00591 491077004422 RF-1 domain; Region: RF-1; cl02875 491077004423 RF-1 domain; Region: RF-1; cl02875 491077004424 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 491077004425 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 491077004426 S-adenosylmethionine binding site [chemical binding]; other site 491077004427 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 491077004428 SUA5 domain; Region: SUA5; pfam03481 491077004429 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 491077004430 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...; Region: SHMT; cd00378 491077004431 dimer interface [polypeptide binding]; other site 491077004432 glycine-pyridoxal phosphate binding site [chemical binding]; other site 491077004433 active site 491077004434 folate binding site [chemical binding]; other site 491077004435 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 491077004436 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 491077004437 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 491077004438 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 491077004439 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 491077004440 YibE/F-like protein; Region: YibE_F; cl02259 491077004441 YibE/F-like protein; Region: YibE_F; cl02259 491077004442 Sulfate transporter family; Region: Sulfate_transp; cl00967 491077004443 Permease family; Region: Xan_ur_permease; pfam00860 491077004444 ATP synthase A chain; Region: ATP-synt_A; cl00413 491077004445 ATP synthase subunit C; Region: ATP-synt_C; cl00466 491077004446 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 491077004447 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 491077004448 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 491077004449 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 491077004450 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 491077004451 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 491077004452 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 491077004453 beta subunit interaction interface [polypeptide binding]; other site 491077004454 Walker A motif; other site 491077004455 ATP binding site [chemical binding]; other site 491077004456 Walker B motif; other site 491077004457 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 491077004458 ATP synthase; Region: ATP-synt; cl00365 491077004459 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 491077004460 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 491077004461 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 491077004462 alpha subunit interaction interface [polypeptide binding]; other site 491077004463 Walker A motif; other site 491077004464 ATP binding site [chemical binding]; other site 491077004465 Walker B motif; other site 491077004466 inhibitor binding site; inhibition site 491077004467 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 491077004468 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 491077004469 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 491077004470 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 491077004471 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 491077004472 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 491077004473 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 491077004474 hinge; other site 491077004475 active site 491077004476 rod shape-determining protein MreB; Provisional; Region: PRK13930 491077004477 Cell division protein FtsA; Region: FtsA; cl11496 491077004478 Domain of unknown function DUF37; Region: DUF37; cl00506 491077004479 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 491077004480 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 491077004481 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 L-...; Region: GCS_H; cd06848 491077004482 lipoyl attachment site [posttranslational modification]; other site 491077004483 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077004484 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077004485 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077004486 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077004487 putative active site [active] 491077004488 putative NTP binding site [chemical binding]; other site 491077004489 putative nucleic acid binding site [nucleotide binding]; other site 491077004490 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077004491 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004492 Integrase core domain; Region: rve; cl01316 491077004493 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004494 Integrase core domain; Region: rve; cl01316 491077004495 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 491077004496 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 491077004497 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 491077004498 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 491077004499 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 491077004500 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 491077004501 putative substrate translocation pore; other site 491077004502 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 491077004503 L-ribulokinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 491077004504 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 491077004505 putative N- and C-terminal domain interface [polypeptide binding]; other site 491077004506 putative active site [active] 491077004507 putative MgATP binding site [chemical binding]; other site 491077004508 catalytic site [active] 491077004509 metal binding site [ion binding]; metal-binding site 491077004510 putative carbohydrate binding site [chemical binding]; other site 491077004511 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II)...; Region: Aldolase_II; cd00398 491077004512 intersubunit interface [polypeptide binding]; other site 491077004513 active site 491077004514 Zn2+ binding site [ion binding]; other site 491077004515 L-arabinose isomerase; Provisional; Region: PRK02929 491077004516 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of...; Region: L-fuc_L-ara-isomerases; cl00947 491077004517 hexamer (dimer of trimers) interface [polypeptide binding]; other site 491077004518 trimer interface [polypeptide binding]; other site 491077004519 substrate binding site [chemical binding]; other site 491077004520 Mn binding site [ion binding]; other site 491077004521 potential frameshift: common BLAST hit: gi|148543718|ref|YP_001271088.1| maltose O-acetyltransferase 491077004522 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 491077004523 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 491077004524 putative trimer interface [polypeptide binding]; other site 491077004525 putative CoA binding site [chemical binding]; other site 491077004526 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...; Region: Aldo_ket_red; cd06660 491077004527 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491077004528 active site 491077004529 catalytic tetrad [active] 491077004530 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491077004531 DNA-binding site [nucleotide binding]; DNA binding site 491077004532 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491077004533 Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AraR; cd01541 491077004534 putative dimerization interface [polypeptide binding]; other site 491077004535 putative ligand binding site [chemical binding]; other site 491077004536 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 491077004537 Ligand Binding Site [chemical binding]; other site 491077004538 recombination factor protein RarA; Reviewed; Region: PRK13342 491077004539 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...; Region: AAA; cd00009 491077004540 Walker A motif; other site 491077004541 ATP binding site [chemical binding]; other site 491077004542 Walker B motif; other site 491077004543 arginine finger; other site 491077004544 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 491077004545 Protein of unknown function (DUF1694); Region: DUF1694; cl02318 491077004546 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004547 Integrase core domain; Region: rve; cl01316 491077004548 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004549 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; cd06587 491077004550 active site 491077004551 metal binding site [ion binding]; metal-binding site 491077004552 Predicted membrane protein [Function unknown]; Region: COG2364 491077004553 Protein of unknown function (DUF328); Region: DUF328; cl01143 491077004554 potential frameshift: common BLAST hit: gi|148543729|ref|YP_001271099.1| oxalyl-CoA decarboxylase 491077004555 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 491077004556 PYR/PP interface [polypeptide binding]; other site 491077004557 TPP binding site [chemical binding]; other site 491077004558 dimer interface [polypeptide binding]; other site 491077004559 potential frameshift: common BLAST hit: gi|148543729|ref|YP_001271099.1| oxalyl-CoA decarboxylase 491077004560 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 491077004561 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 491077004562 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...; Region: TPP_enzymes; cl01629 491077004563 TPP-binding site [chemical binding]; other site 491077004564 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...; Region: TPP_enzymes; cl01629 491077004565 Uncharacterised protein family (UPF0236); Region: UPF0236; pfam06782 491077004566 Uncharacterised protein family (UPF0236); Region: UPF0236; pfam06782 491077004567 potential frameshift: common BLAST hit: gi|184156043|ref|YP_001844383.1| transposase 491077004568 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004569 Integrase core domain; Region: rve; cl01316 491077004570 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 491077004571 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 491077004572 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 491077004573 RNA binding surface [nucleotide binding]; other site 491077004574 Septation ring formation regulator, EzrA; Region: EzrA; pfam06160 491077004575 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 491077004576 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 491077004577 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491077004578 catalytic residue [active] 491077004579 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 491077004580 THUMP domain; Region: THUMP; cl12076 491077004581 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 491077004582 Ligand Binding Site [chemical binding]; other site 491077004583 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 491077004584 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 491077004585 active site 491077004586 HIGH motif; other site 491077004587 nucleotide binding site [chemical binding]; other site 491077004588 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 491077004589 active site 491077004590 KMSKS motif; other site 491077004591 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 491077004592 tRNA binding surface [nucleotide binding]; other site 491077004593 anticodon binding site; other site 491077004594 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 491077004595 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 491077004596 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 491077004597 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 491077004598 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 491077004599 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 491077004600 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 491077004601 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077004602 Walker A/P-loop; other site 491077004603 ATP binding site [chemical binding]; other site 491077004604 Q-loop/lid; other site 491077004605 ABC transporter signature motif; other site 491077004606 Walker B; other site 491077004607 D-loop; other site 491077004608 H-loop/switch region; other site 491077004609 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 491077004610 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 491077004611 The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd...; Region: ABCC_cytochrome_bd; cd03247 491077004612 Walker A/P-loop; other site 491077004613 ATP binding site [chemical binding]; other site 491077004614 Q-loop/lid; other site 491077004615 ABC transporter signature motif; other site 491077004616 Walker B; other site 491077004617 D-loop; other site 491077004618 H-loop/switch region; other site 491077004619 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 491077004620 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077004621 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077004622 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077004623 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 491077004624 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491077004625 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 491077004626 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 491077004627 MPN+ (JAMM) motif; other site 491077004628 Zinc-binding site [ion binding]; other site 491077004629 rod shape-determining protein MreB; Provisional; Region: PRK13927 491077004630 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 491077004631 ATP binding site [chemical binding]; other site 491077004632 Cell division protein FtsA; Region: FtsA; cl11496 491077004633 rod shape-determining protein MreC; Provisional; Region: PRK13922 491077004634 rod shape-determining protein MreC; Region: MreC; pfam04085 491077004635 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...; Region: TM_PBP2; cd06261 491077004636 dimer interface [polypeptide binding]; other site 491077004637 conserved gate region; other site 491077004638 putative PBP binding loops; other site 491077004639 ABC-ATPase subunit interface; other site 491077004640 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 491077004641 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077004642 Walker A/P-loop; other site 491077004643 ATP binding site [chemical binding]; other site 491077004644 Q-loop/lid; other site 491077004645 ABC transporter signature motif; other site 491077004646 Walker B; other site 491077004647 D-loop; other site 491077004648 H-loop/switch region; other site 491077004649 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 491077004650 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...; Region: PBPb; cd00134 491077004651 substrate binding pocket [chemical binding]; other site 491077004652 membrane-bound complex binding site; other site 491077004653 hinge residues; other site 491077004654 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 491077004655 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 491077004656 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 491077004657 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 491077004658 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 491077004659 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 491077004660 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 491077004661 competence damage-inducible protein A; Provisional; Region: PRK00549 491077004662 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 491077004663 putative MPT binding site; other site 491077004664 Competence-damaged protein; Region: CinA; cl00666 491077004665 recombinase A; Provisional; Region: recA; PRK09354 491077004666 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 491077004667 hexamer interface [polypeptide binding]; other site 491077004668 Walker A motif; other site 491077004669 ATP binding site [chemical binding]; other site 491077004670 Walker B motif; other site 491077004671 phosphodiesterase; Provisional; Region: PRK12704 491077004672 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 491077004673 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 491077004674 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 491077004675 MutS domain I; Region: MutS_I; pfam01624 491077004676 MutS domain II; Region: MutS_II; pfam05188 491077004677 MutS family domain IV; Region: MutS_IV; pfam05190 491077004678 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 491077004679 Walker A/P-loop; other site 491077004680 ATP binding site [chemical binding]; other site 491077004681 Q-loop/lid; other site 491077004682 ABC transporter signature motif; other site 491077004683 Walker B; other site 491077004684 D-loop; other site 491077004685 H-loop/switch region; other site 491077004686 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 491077004687 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 491077004688 ATP binding site [chemical binding]; other site 491077004689 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 491077004690 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 491077004691 RuvA N terminal domain; Region: RuvA_N; pfam01330 491077004692 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 491077004693 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 491077004694 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...; Region: AAA; cd00009 491077004695 Walker A motif; other site 491077004696 ATP binding site [chemical binding]; other site 491077004697 Walker B motif; other site 491077004698 arginine finger; other site 491077004699 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 491077004700 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 491077004701 Preprotein translocase subunit; Region: YajC; cl00806 491077004702 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077004703 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077004704 putative active site [active] 491077004705 putative NTP binding site [chemical binding]; other site 491077004706 putative nucleic acid binding site [nucleotide binding]; other site 491077004707 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077004708 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 491077004709 DHH family; Region: DHH; pfam01368 491077004710 DHHA1 domain; Region: DHHA1; pfam02272 491077004711 DEAD-like helicases superfamily; Region: DEXDc; smart00487 491077004712 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 491077004713 ATP binding site [chemical binding]; other site 491077004714 Mg++ binding site [ion binding]; other site 491077004715 motif III; other site 491077004716 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 491077004717 nucleotide binding region [chemical binding]; other site 491077004718 ATP-binding site [chemical binding]; other site 491077004719 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 491077004720 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...; Region: AlaRS_core; cd00673 491077004721 motif 1; other site 491077004722 active site 491077004723 motif 2; other site 491077004724 motif 3; other site 491077004725 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 491077004726 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 491077004727 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 491077004728 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 491077004729 Colicin V production protein; Region: Colicin_V; cl00567 491077004730 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 491077004731 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077004732 Walker A/P-loop; other site 491077004733 ATP binding site [chemical binding]; other site 491077004734 Q-loop/lid; other site 491077004735 ABC transporter signature motif; other site 491077004736 Walker B; other site 491077004737 D-loop; other site 491077004738 H-loop/switch region; other site 491077004739 Smr domain; Region: Smr; cl02619 491077004740 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 491077004741 catalytic residues [active] 491077004742 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 491077004743 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 491077004744 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 Ham1-...; Region: HAM1; cd00515 491077004745 active site 491077004746 dimerization interface [polypeptide binding]; other site 491077004747 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 491077004748 active site 491077004749 metal binding site [ion binding]; metal-binding site 491077004750 homotetramer interface [polypeptide binding]; other site 491077004751 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair_30; cd04643 491077004752 FOG: CBS domain [General function prediction only]; Region: COG0517 491077004753 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 491077004754 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 491077004755 active site 491077004756 motif I; other site 491077004757 motif II; other site 491077004758 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; cl11391 491077004759 Mechanosensitive ion channel; Region: MS_channel; pfam00924 491077004760 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 491077004761 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 491077004762 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 491077004763 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 491077004764 active site 491077004765 catabolite control protein A; Region: ccpA; TIGR01481 491077004766 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491077004767 DNA binding site [nucleotide binding] 491077004768 domain linker motif; other site 491077004769 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 491077004770 dimerization interface [polypeptide binding]; other site 491077004771 effector binding site; other site 491077004772 Domain of unknown function DUF28; Region: DUF28; cl00361 491077004773 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077004774 Walker A motif; other site 491077004775 ATP binding site [chemical binding]; other site 491077004776 Walker B motif; other site 491077004777 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 491077004778 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 491077004779 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 491077004780 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004781 Integrase core domain; Region: rve; cl01316 491077004782 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 491077004783 Acetokinase family; Region: Acetate_kinase; cl01029 491077004784 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 491077004785 putative active site [active] 491077004786 putative metal binding site [ion binding]; other site 491077004787 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 491077004788 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 491077004789 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 491077004790 active site 491077004791 motif I; other site 491077004792 motif II; other site 491077004793 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 491077004794 Protein of unknown function (DUF1461); Region: DUF1461; cl01862 491077004795 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 491077004796 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 491077004797 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 491077004798 Integrase core domain; Region: rve; cl01316 491077004799 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 491077004800 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...; Region: AAA; cd00009 491077004801 Walker A motif; other site 491077004802 ATP binding site [chemical binding]; other site 491077004803 Walker B motif; other site 491077004804 arginine finger; other site 491077004805 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 491077004806 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 491077004807 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 491077004808 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting...; Region: ArsC_Spx; cd03032 491077004809 putative catalytic residues [active] 491077004810 thiol/disulfide switch; other site 491077004811 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 491077004812 Competence protein CoiA-like family; Region: CoiA; cl11541 491077004813 Peptidase family C69; Region: Peptidase_C69; cl01920 491077004814 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 491077004815 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004816 Integrase core domain; Region: rve; cl01316 491077004817 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 491077004818 synthetase active site [active] 491077004819 NTP binding site [chemical binding]; other site 491077004820 metal binding site [ion binding]; metal-binding site 491077004821 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 491077004822 ATP-NAD kinase; Region: NAD_kinase; pfam01513 491077004823 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 491077004824 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...; Region: PseudoU_synth_RluCD_like; cd02869 491077004825 active site 491077004826 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004827 Integrase core domain; Region: rve; cl01316 491077004828 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 491077004829 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 491077004830 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 491077004831 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 491077004832 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 491077004833 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 491077004834 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 491077004835 putative transposase OrfB; Reviewed; Region: PHA02517 491077004836 Integrase core domain; Region: rve; cl01316 491077004837 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 491077004838 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 491077004839 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 491077004840 S-adenosylmethionine binding site [chemical binding]; other site 491077004841 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 491077004842 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 491077004843 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 491077004844 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077004845 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 491077004846 cell division protein MraZ; Reviewed; Region: PRK00326 491077004847 MraZ protein; Region: MraZ; pfam02381 491077004848 MraZ protein; Region: MraZ; pfam02381 491077004849 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 491077004850 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 491077004851 Septum formation initiator; Region: DivIC; cl11433 491077004852 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 491077004853 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 491077004854 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 491077004855 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 491077004856 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 491077004857 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 491077004858 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 undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 491077004859 Mg++ binding site [ion binding]; other site 491077004860 putative catalytic motif [active] 491077004861 putative substrate binding site [chemical binding]; other site 491077004862 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 491077004863 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077004864 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491077004865 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 491077004866 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 491077004867 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...; Region: GT1_MurG; cd03785 491077004868 active site 491077004869 homodimer interface [polypeptide binding]; other site 491077004870 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 491077004871 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 491077004872 Cell division protein FtsQ; Region: FtsQ; pfam03799 491077004873 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 491077004874 Cell division protein FtsA; Region: FtsA; cl11496 491077004875 Cell division protein FtsA; Region: FtsA; cl11496 491077004876 cell division protein FtsZ; Validated; Region: PRK09330 491077004877 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum...; Region: FtsZ_type1; cd02201 491077004878 nucleotide binding site [chemical binding]; other site 491077004879 SulA interaction site; other site 491077004880 Protein of unknown function (DUF552); Region: DUF552; cl00775 491077004881 YGGT family; Region: YGGT; cl00508 491077004882 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 491077004883 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 491077004884 RNA binding surface [nucleotide binding]; other site 491077004885 DivIVA protein; Region: DivIVA; pfam05103 491077004886 DivIVA domain; Region: DivI1A_domain; TIGR03544 491077004887 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 491077004888 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 491077004889 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 491077004890 active site 491077004891 HIGH motif; other site 491077004892 nucleotide binding site [chemical binding]; other site 491077004893 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 491077004894 active site 491077004895 KMSKS motif; other site 491077004896 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 491077004897 tRNA binding surface [nucleotide binding]; other site 491077004898 anticodon binding site; other site 491077004899 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 491077004900 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 491077004901 DNA-binding site [nucleotide binding]; DNA binding site 491077004902 RNA-binding motif; other site 491077004903 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as...; Region: ADPRase_NUDT5; cd03424 491077004904 dimer interface [polypeptide binding]; other site 491077004905 ADP-ribose binding site [chemical binding]; other site 491077004906 active site 491077004907 nudix motif; other site 491077004908 metal binding site [ion binding]; metal-binding site 491077004909 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 491077004910 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 491077004911 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 491077004912 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491077004913 catalytic residue [active] 491077004914 Domain of unknown function (DUF1831); Region: DUF1831; pfam08866 491077004915 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 491077004916 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 491077004917 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 491077004918 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 491077004919 catalytic core [active] 491077004920 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 491077004921 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 491077004922 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 491077004923 RecD/TraA family; Region: recD_rel; TIGR01448 491077004924 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 491077004925 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 491077004926 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 491077004927 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 491077004928 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 491077004929 aspartate kinase; Reviewed; Region: PRK09034 491077004930 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 491077004931 putative catalytic residues [active] 491077004932 putative nucleotide binding site [chemical binding]; other site 491077004933 putative aspartate binding site [chemical binding]; other site 491077004934 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 491077004935 allosteric regulatory residue; other site 491077004936 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 491077004937 diaminopimelate decarboxylase; Region: lysA; TIGR01048 491077004938 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 491077004939 active site 491077004940 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 491077004941 substrate binding site [chemical binding]; other site 491077004942 catalytic residues [active] 491077004943 dimer interface [polypeptide binding]; other site 491077004944 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapD_N; pfam08503 491077004945 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 491077004946 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA...; Region: LbH_THP_succinylT; cd03350 491077004947 trimer interface [polypeptide binding]; other site 491077004948 active site 491077004949 substrate binding site [chemical binding]; other site 491077004950 CoA binding site [chemical binding]; other site 491077004951 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 491077004952 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 491077004953 metal binding site [ion binding]; metal-binding site 491077004954 putative dimer interface [polypeptide binding]; other site 491077004955 dihydrodipicolinate synthase; Region: dapA; TIGR00674 491077004956 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 491077004957 dimer interface [polypeptide binding]; other site 491077004958 active site 491077004959 catalytic residue [active] 491077004960 dihydrodipicolinate reductase; Provisional; Region: PRK00048 491077004961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077004962 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 491077004963 hypothetical protein; Validated; Region: PRK07682 491077004964 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 491077004965 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077004966 homodimer interface [polypeptide binding]; other site 491077004967 catalytic residue [active] 491077004968 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 491077004969 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077004970 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 491077004971 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 491077004972 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 491077004973 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 491077004974 GntP family permease; Region: GntP_permease; cl15264 491077004975 Glycerate kinase family; Region: Gly_kinase; cl00841 491077004976 Uncharacterised protein family (UPF0236); Region: UPF0236; pfam06782 491077004977 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; cl00107 491077004978 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 491077004979 putative peptidoglycan binding site; other site 491077004980 NlpC/P60 family; Region: NLPC_P60; cl11438 491077004981 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 491077004982 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 491077004983 Protein of unknown function (DUF1447); Region: DUF1447; cl11492 491077004984 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(...; Region: Pep_deformylase; cd00487 491077004985 active site 491077004986 catalytic residues [active] 491077004987 metal binding site [ion binding]; metal-binding site 491077004988 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 491077004989 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 491077004990 TPP-binding site [chemical binding]; other site 491077004991 heterodimer interface [polypeptide binding]; other site 491077004992 tetramer interface [polypeptide binding]; other site 491077004993 phosphorylation loop region [posttranslational modification] 491077004994 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 491077004995 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 491077004996 alpha subunit interface [polypeptide binding]; other site 491077004997 TPP binding site [chemical binding]; other site 491077004998 heterodimer interface [polypeptide binding]; other site 491077004999 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 491077005000 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 491077005001 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 491077005002 E3 interaction surface; other site 491077005003 lipoyl attachment site [posttranslational modification]; other site 491077005004 e3 binding domain; Region: E3_binding; pfam02817 491077005005 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 491077005006 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077005007 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 491077005008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077005009 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 491077005010 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077005011 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077005012 putative active site [active] 491077005013 putative NTP binding site [chemical binding]; other site 491077005014 putative nucleic acid binding site [nucleotide binding]; other site 491077005015 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077005016 Uncharacterised protein family (UPF0223); Region: UPF0223; cl11484 491077005017 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1,6-; Region: IMPase_like; cd01637 491077005018 active site 491077005019 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 491077005020 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 491077005021 G1 box; other site 491077005022 putative GEF interaction site [polypeptide binding]; other site 491077005023 GTP/Mg2+ binding site [chemical binding]; other site 491077005024 Switch I region; other site 491077005025 G2 box; other site 491077005026 G3 box; other site 491077005027 Switch II region; other site 491077005028 G4 box; other site 491077005029 G5 box; other site 491077005030 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 491077005031 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...; Region: BipA_TypA_C; cd03710 491077005032 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077005033 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077005034 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 491077005035 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; cl11453 491077005036 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 491077005037 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 491077005038 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 491077005039 active site 491077005040 (T/H)XGH motif; other site 491077005041 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 491077005042 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 C-...; Region: PDZ_serine_protease; cd00987 491077005043 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 491077005044 SLBB domain; Region: SLBB; pfam10531 491077005045 comEA protein; Region: comE; TIGR01259 491077005046 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 491077005047 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 491077005048 catalytic motif [active] 491077005049 Zn binding site [ion binding]; other site 491077005050 Competence protein; Region: Competence; cl00471 491077005051 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 491077005052 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 491077005053 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 491077005054 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 491077005055 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...; Region: Ribosomal_S15p_S13e; cd00353 491077005056 16S/18S rRNA binding site [nucleotide binding]; other site 491077005057 S13e-L30e interaction site [polypeptide binding]; other site 491077005058 25S rRNA binding site [nucleotide binding]; other site 491077005059 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 491077005060 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 491077005061 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 491077005062 elongation factor Tu; Reviewed; Region: PRK00049 491077005063 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 491077005064 G1 box; other site 491077005065 GEF interaction site [polypeptide binding]; other site 491077005066 GTP/Mg2+ binding site [chemical binding]; other site 491077005067 Switch I region; other site 491077005068 G2 box; other site 491077005069 G3 box; other site 491077005070 Switch II region; other site 491077005071 G4 box; other site 491077005072 G5 box; other site 491077005073 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 491077005074 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 491077005075 Antibiotic Binding Site [chemical binding]; other site 491077005076 trigger factor; Provisional; Region: tig; PRK01490 491077005077 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 491077005078 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 491077005079 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 491077005080 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 491077005081 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...; Region: AAA; cd00009 491077005082 Walker A motif; other site 491077005083 ATP binding site [chemical binding]; other site 491077005084 Walker B motif; other site 491077005085 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 491077005086 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 491077005087 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 491077005088 G1 box; other site 491077005089 GTP/Mg2+ binding site [chemical binding]; other site 491077005090 Switch I region; other site 491077005091 G2 box; other site 491077005092 G3 box; other site 491077005093 Switch II region; other site 491077005094 G4 box; other site 491077005095 G5 box; other site 491077005096 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 491077005097 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077005098 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077005099 putative active site [active] 491077005100 putative NTP binding site [chemical binding]; other site 491077005101 putative nucleic acid binding site [nucleotide binding]; other site 491077005102 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077005103 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 491077005104 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 491077005105 GIY-YIG motif/motif A; other site 491077005106 active site 491077005107 catalytic site [active] 491077005108 putative DNA binding site [nucleotide binding]; other site 491077005109 metal binding site [ion binding]; metal-binding site 491077005110 UvrB/uvrC motif; Region: UVR; pfam02151 491077005111 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 491077005112 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 491077005113 DNA binding site [nucleotide binding] 491077005114 GTPase CgtA; Reviewed; Region: obgE; PRK12297 491077005115 GTP1/OBG; Region: GTP1_OBG; pfam01018 491077005116 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 491077005117 G1 box; other site 491077005118 GTP/Mg2+ binding site [chemical binding]; other site 491077005119 Switch I region; other site 491077005120 G2 box; other site 491077005121 G3 box; other site 491077005122 Switch II region; other site 491077005123 G4 box; other site 491077005124 G5 box; other site 491077005125 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 491077005126 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 491077005127 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 491077005128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077005129 NAD(P) binding site [chemical binding]; other site 491077005130 active site 491077005131 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 491077005132 DHH family; Region: DHH; pfam01368 491077005133 DHHA1 domain; Region: DHHA1; pfam02272 491077005134 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 491077005135 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 491077005136 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005137 Integrase core domain; Region: rve; cl01316 491077005138 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005139 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 491077005140 Phage integrase family; Region: Phage_integrase; pfam00589 491077005141 Int/Topo IB signature motif; other site 491077005142 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 491077005143 non-specific DNA binding site [nucleotide binding]; other site 491077005144 salt bridge; other site 491077005145 sequence-specific DNA binding site [nucleotide binding]; other site 491077005146 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 491077005147 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 491077005148 polymerase nucleotide-binding site; other site 491077005149 DNA-binding residues [nucleotide binding]; DNA binding site 491077005150 nucleotide binding site [chemical binding]; other site 491077005151 primase nucleotide-binding site [nucleotide binding]; other site 491077005152 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 491077005153 D5 N terminal like; Region: D5_N; cl07360 491077005154 C-terminal domain; Region: primase_Cterm; TIGR01613 491077005155 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005156 Integrase core domain; Region: rve; cl01316 491077005157 Protein of unknown function (DUF2758); Region: DUF2758; pfam10957 491077005158 Uncharacterised protein family (UPF0236); Region: UPF0236; pfam06782 491077005159 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 491077005160 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 491077005161 RNA/DNA hybrid binding site [nucleotide binding]; other site 491077005162 active site 491077005163 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 491077005164 '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...; Region: init_cond_enzymes; cd00827 491077005165 dimer interface [polypeptide binding]; other site 491077005166 active site 491077005167 LexA repressor; Validated; Region: PRK00215 491077005168 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077005169 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 (...; Region: S24_LexA-like; cd06529 491077005170 Catalytic site [active] 491077005171 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 491077005172 Uncharacterised protein family (UPF0154); Region: UPF0154; cl01536 491077005173 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 491077005174 putative acyl-acceptor binding pocket; other site 491077005175 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 491077005176 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 491077005177 S-adenosylmethionine binding site [chemical binding]; other site 491077005178 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 491077005179 GIY-YIG motif/motif A; other site 491077005180 putative active site [active] 491077005181 putative metal binding site [ion binding]; other site 491077005182 D-lactate dehydrogenase; Validated; Region: PRK08605 491077005183 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077005184 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 491077005185 rRNA interaction site [nucleotide binding]; other site 491077005186 S8 interaction site; other site 491077005187 putative laminin-1 binding site; other site 491077005188 elongation factor Ts; Provisional; Region: tsf; PRK09377 491077005189 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 491077005190 Elongation factor TS; Region: EF_TS; pfam00889 491077005191 Elongation factor TS; Region: EF_TS; pfam00889 491077005192 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...; Region: AAK_UMPK-PyrH-Ec; cd04254 491077005193 putative nucleotide binding site [chemical binding]; other site 491077005194 uridine monophosphate binding site [chemical binding]; other site 491077005195 homohexameric interface [polypeptide binding]; other site 491077005196 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 491077005197 hinge region; other site 491077005198 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 491077005199 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; cd00475 491077005200 catalytic residue [active] 491077005201 putative FPP diphosphate binding site; other site 491077005202 putative FPP binding hydrophobic cleft; other site 491077005203 dimer interface [polypeptide binding]; other site 491077005204 putative IPP diphosphate binding site; other site 491077005205 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 491077005206 RIP metalloprotease RseP; Region: TIGR00054 491077005207 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 491077005208 active site 491077005209 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 491077005210 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...; Region: PDZ_metalloprotease; cd00989 491077005211 protein binding site [polypeptide binding]; other site 491077005212 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 491077005213 putative substrate binding region [chemical binding]; other site 491077005214 prolyl-tRNA synthetase; Provisional; Region: PRK09194 491077005215 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...; Region: ProRS_core_prok; cd00779 491077005216 dimer interface [polypeptide binding]; other site 491077005217 motif 1; other site 491077005218 active site 491077005219 motif 2; other site 491077005220 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and single-...; Region: ProRS-INS; cd04334 491077005221 putative deacylase active site [active] 491077005222 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 491077005223 active site 491077005224 motif 3; other site 491077005225 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-...; Region: ProRS_anticodon_short; cd00861 491077005226 anticodon binding site; other site 491077005227 DNA polymerase III PolC; Validated; Region: polC; PRK00448 491077005228 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 491077005229 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 491077005230 generic binding surface II; other site 491077005231 generic binding surface I; other site 491077005232 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 491077005233 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 491077005234 active site 491077005235 substrate binding site [chemical binding]; other site 491077005236 catalytic site [active] 491077005237 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 491077005238 ribosome maturation protein RimP; Reviewed; Region: PRK00092 491077005239 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 491077005240 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 491077005241 Sm1 motif; other site 491077005242 predicted subunit interaction site [polypeptide binding]; other site 491077005243 RNA binding pocket [nucleotide binding]; other site 491077005244 Sm2 motif; other site 491077005245 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 491077005246 NusA N-terminal domain; Region: NusA_N; pfam08529 491077005247 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...; Region: S1_NusA; cd04455 491077005248 RNA binding site [nucleotide binding]; other site 491077005249 homodimer interface [polypeptide binding]; other site 491077005250 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 491077005251 G-X-X-G motif; other site 491077005252 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 491077005253 putative RNA binding cleft [nucleotide binding]; other site 491077005254 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 491077005255 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 491077005256 translation initiation factor IF-2; Region: IF-2; TIGR00487 491077005257 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 491077005258 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 491077005259 G1 box; other site 491077005260 putative GEF interaction site [polypeptide binding]; other site 491077005261 GTP/Mg2+ binding site [chemical binding]; other site 491077005262 Switch I region; other site 491077005263 G2 box; other site 491077005264 G3 box; other site 491077005265 Switch II region; other site 491077005266 G4 box; other site 491077005267 G5 box; other site 491077005268 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...; Region: IF2_mtIF2_II; cd03702 491077005269 Translation-initiation factor 2; Region: IF-2; pfam11987 491077005270 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...; Region: mtIF2_IVc; cd03692 491077005271 Ribosome-binding factor A; Region: RBFA; cl00542 491077005272 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 491077005273 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...; Region: PseudoU_synth_EcTruB; cd02573 491077005274 RNA binding site [nucleotide binding]; other site 491077005275 active site 491077005276 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 491077005277 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 491077005278 active site 491077005279 Riboflavin kinase; Region: Flavokinase; cl03312 491077005280 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 491077005281 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077005282 HrcA protein C terminal domain; Region: HrcA; pfam01628 491077005283 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 491077005284 dimer interface [polypeptide binding]; other site 491077005285 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 491077005286 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 491077005287 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 491077005288 chaperone protein DnaJ; Provisional; Region: PRK14276 491077005289 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...; Region: DnaJ; cd06257 491077005290 HSP70 interaction site [polypeptide binding]; other site 491077005291 DnaJ central domain; Region: DnaJ_CXXCXGXG; cl14908 491077005292 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 491077005293 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 491077005294 GTP-binding protein LepA; Provisional; Region: PRK05433 491077005295 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 491077005296 G1 box; other site 491077005297 putative GEF interaction site [polypeptide binding]; other site 491077005298 GTP/Mg2+ binding site [chemical binding]; other site 491077005299 Switch I region; other site 491077005300 G2 box; other site 491077005301 G3 box; other site 491077005302 Switch II region; other site 491077005303 G4 box; other site 491077005304 G5 box; other site 491077005305 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-...; Region: lepA_II; cd03699 491077005306 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 491077005307 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 491077005308 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077005309 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077005310 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005311 Peptidase family C69; Region: Peptidase_C69; cl01920 491077005312 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 491077005313 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005314 Integrase core domain; Region: rve; cl01316 491077005315 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 491077005316 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 491077005317 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 491077005318 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491077005319 NAD binding site [chemical binding]; other site 491077005320 dimer interface [polypeptide binding]; other site 491077005321 substrate binding site [chemical binding]; other site 491077005322 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 491077005323 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 491077005324 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 491077005325 S-adenosylmethionine binding site [chemical binding]; other site 491077005326 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 491077005327 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 491077005328 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 491077005329 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 491077005330 synthetase active site [active] 491077005331 NTP binding site [chemical binding]; other site 491077005332 metal binding site [ion binding]; metal-binding site 491077005333 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named...; Region: TGS_RelA_SpoT; cd01668 491077005334 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 491077005335 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...; Region: Dtyr_deacylase; cd00563 491077005336 putative active site [active] 491077005337 dimerization interface [polypeptide binding]; other site 491077005338 putative tRNAtyr binding site [nucleotide binding]; other site 491077005339 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 491077005340 Phosphotransferase enzyme family; Region: APH; pfam01636 491077005341 active site 491077005342 substrate binding site [chemical binding]; other site 491077005343 ATP binding site [chemical binding]; other site 491077005344 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 491077005345 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 491077005346 dimer interface [polypeptide binding]; other site 491077005347 anticodon binding site; other site 491077005348 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 491077005349 homodimer interface [polypeptide binding]; other site 491077005350 motif 1; other site 491077005351 active site 491077005352 motif 2; other site 491077005353 GAD domain; Region: GAD; pfam02938 491077005354 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 491077005355 active site 491077005356 motif 3; other site 491077005357 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491077005358 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 491077005359 Walker A/P-loop; other site 491077005360 ATP binding site [chemical binding]; other site 491077005361 Q-loop/lid; other site 491077005362 ABC transporter signature motif; other site 491077005363 Walker B; other site 491077005364 D-loop; other site 491077005365 H-loop/switch region; other site 491077005366 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491077005367 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...; Region: PBPb; cd00134 491077005368 substrate binding pocket [chemical binding]; other site 491077005369 membrane-bound complex binding site; other site 491077005370 hinge residues; other site 491077005371 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491077005372 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...; Region: TM_PBP2; cd06261 491077005373 dimer interface [polypeptide binding]; other site 491077005374 conserved gate region; other site 491077005375 putative PBP binding loops; other site 491077005376 ABC-ATPase subunit interface; other site 491077005377 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 491077005378 GatB domain; Region: GatB_Yqey; cl11497 491077005379 potential frameshift: common BLAST hit: gi|148543961|ref|YP_001271331.1| choloylglycine hydrolase 491077005380 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a four-...; Region: Ntn_hydrolase; cl00467 491077005381 active site 491077005382 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a four-...; Region: Ntn_hydrolase; cl00467 491077005383 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 491077005384 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 491077005385 ANP binding site [chemical binding]; other site 491077005386 Substrate Binding Site II [chemical binding]; other site 491077005387 Substrate Binding Site I [chemical binding]; other site 491077005388 argininosuccinate lyase; Provisional; Region: PRK00855 491077005389 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 491077005390 active sites [active] 491077005391 tetramer interface [polypeptide binding]; other site 491077005392 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005393 Integrase core domain; Region: rve; cl01316 491077005394 BioY family; Region: BioY; cl00560 491077005395 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077005396 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 491077005397 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 491077005398 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 491077005399 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 491077005400 PhoH-like protein; Region: PhoH; cl12134 491077005401 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 491077005402 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 491077005403 GTPase Era; Reviewed; Region: era; PRK00089 491077005404 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 491077005405 G1 box; other site 491077005406 GTP/Mg2+ binding site [chemical binding]; other site 491077005407 Switch I region; other site 491077005408 G2 box; other site 491077005409 Switch II region; other site 491077005410 G3 box; other site 491077005411 G4 box; other site 491077005412 G5 box; other site 491077005413 Recombination protein O N terminal; Region: RecO_N; pfam11967 491077005414 DNA repair protein RecO; Region: reco; TIGR00613 491077005415 Recombination protein O C terminal; Region: RecO_C; pfam02565 491077005416 glycyl-tRNA synthetase, tetrameric type, alpha subunit; Region: glyQ; TIGR00388 491077005417 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 491077005418 dimer interface [polypeptide binding]; other site 491077005419 motif 1; other site 491077005420 active site 491077005421 motif 2; other site 491077005422 motif 3; other site 491077005423 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 491077005424 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 491077005425 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 491077005426 DNA primase; Validated; Region: dnaG; PRK05667 491077005427 CHC2 zinc finger; Region: zf-CHC2; cl02597 491077005428 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 491077005429 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 491077005430 active site 491077005431 metal binding site [ion binding]; metal-binding site 491077005432 interdomain interaction site; other site 491077005433 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 491077005434 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 491077005435 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 491077005436 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 491077005437 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491077005438 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 491077005439 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...; Region: Sigma70_r4; cd06171 491077005440 DNA binding residues [nucleotide binding] 491077005441 hypothetical protein; Validated; Region: PRK07682 491077005442 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 491077005443 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077005444 homodimer interface [polypeptide binding]; other site 491077005445 catalytic residue [active] 491077005446 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 491077005447 Uncharacterized conserved protein [Function unknown]; Region: COG0327 491077005448 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl00412 491077005449 peptidase T; Region: peptidase-T; TIGR01882 491077005450 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 491077005451 metal binding site [ion binding]; metal-binding site 491077005452 dimer interface [polypeptide binding]; other site 491077005453 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 491077005454 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 491077005455 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 491077005456 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 491077005457 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...; Region: DnaE_OBF; cd04485 491077005458 generic binding surface II; other site 491077005459 generic binding surface I; other site 491077005460 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; cd00288 491077005461 pyruvate kinase; Provisional; Region: PRK05826 491077005462 domain interfaces; other site 491077005463 active site 491077005464 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 491077005465 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 491077005466 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 491077005467 DNA binding site [nucleotide binding] 491077005468 Int/Topo IB signature motif; other site 491077005469 active site 491077005470 ScpA/B protein; Region: ScpA_ScpB; cl00598 491077005471 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 491077005472 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 491077005473 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 491077005474 RNA binding surface [nucleotide binding]; other site 491077005475 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 491077005476 active site 491077005477 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 491077005478 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 491077005479 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077005480 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077005481 putative active site [active] 491077005482 putative NTP binding site [chemical binding]; other site 491077005483 putative nucleic acid binding site [nucleotide binding]; other site 491077005484 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077005485 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 491077005486 RQC domain; Region: RQC; cl09632 491077005487 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 491077005488 ATP binding site [chemical binding]; other site 491077005489 putative Mg++ binding site [ion binding]; other site 491077005490 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 491077005491 nucleotide binding region [chemical binding]; other site 491077005492 ATP-binding site [chemical binding]; other site 491077005493 cytidylate kinase; Provisional; Region: cmk; PRK00023 491077005494 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 491077005495 CMP-binding site; other site 491077005496 The sites determining sugar specificity; other site 491077005497 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 491077005498 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 491077005499 RNA binding site [nucleotide binding]; other site 491077005500 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 491077005501 RNA binding site [nucleotide binding]; other site 491077005502 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 491077005503 RNA binding site [nucleotide binding]; other site 491077005504 S1_RPS1_repeat_hs4: 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_hs4; cd05692 491077005505 RNA binding site [nucleotide binding]; other site 491077005506 GTP-binding protein Der; Reviewed; Region: PRK00093 491077005507 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...; Region: EngA1; cd01894 491077005508 G1 box; other site 491077005509 GTP/Mg2+ binding site [chemical binding]; other site 491077005510 Switch I region; other site 491077005511 G2 box; other site 491077005512 Switch II region; other site 491077005513 G3 box; other site 491077005514 G4 box; other site 491077005515 G5 box; other site 491077005516 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...; Region: EngA2; cd01895 491077005517 G1 box; other site 491077005518 GTP/Mg2+ binding site [chemical binding]; other site 491077005519 Switch I region; other site 491077005520 G2 box; other site 491077005521 G3 box; other site 491077005522 Switch II region; other site 491077005523 G4 box; other site 491077005524 G5 box; other site 491077005525 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 higher-...; Region: HU_IHF; cd00591 491077005526 IHF dimer interface [polypeptide binding]; other site 491077005527 IHF - DNA interface [nucleotide binding]; other site 491077005528 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 491077005529 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 491077005530 binding surface 491077005531 TPR motif; other site 491077005532 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077005533 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077005534 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 491077005535 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 491077005536 active site 491077005537 NTP binding site [chemical binding]; other site 491077005538 metal binding triad [ion binding]; metal-binding site 491077005539 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 491077005540 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 491077005541 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077005542 Walker A/P-loop; other site 491077005543 ATP binding site [chemical binding]; other site 491077005544 Q-loop/lid; other site 491077005545 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...; Region: ABCF_EF-3; cd03221 491077005546 ABC transporter signature motif; other site 491077005547 Walker B; other site 491077005548 ABC transporter; Region: ABC_tran_2; pfam12848 491077005549 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...; Region: ABCF_EF-3; cd03221 491077005550 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 491077005551 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 491077005552 dimerization interface [polypeptide binding]; other site 491077005553 active site 491077005554 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 5,10-...; Region: DHFR; cd00209 491077005555 folate binding site [chemical binding]; other site 491077005556 NADP+ binding site [chemical binding]; other site 491077005557 Haemolysin-III related; Region: HlyIII; cl03831 491077005558 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 491077005559 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_YpmR_like; cd04506 491077005560 active site 491077005561 catalytic triad [active] 491077005562 oxyanion hole [active] 491077005563 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 491077005564 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 491077005565 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 491077005566 YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases...; Region: YlqF; cd01856 491077005567 GTP/Mg2+ binding site [chemical binding]; other site 491077005568 G4 box; other site 491077005569 G5 box; other site 491077005570 G1 box; other site 491077005571 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 491077005572 Switch I region; other site 491077005573 G2 box; other site 491077005574 G3 box; other site 491077005575 Switch II region; other site 491077005576 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 491077005577 RNA/DNA hybrid binding site [nucleotide binding]; other site 491077005578 active site 491077005579 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 491077005580 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 491077005581 active site 491077005582 metal binding site [ion binding]; metal-binding site 491077005583 DNA topoisomerase I; Validated; Region: PRK05582 491077005584 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 491077005585 active site 491077005586 metal binding site [ion binding]; metal-binding site 491077005587 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...; Region: TOP1Ac; cd00186 491077005588 domain I; other site 491077005589 DNA binding groove [nucleotide binding] 491077005590 phosphate binding site [ion binding]; other site 491077005591 domain II; other site 491077005592 domain III; other site 491077005593 nucleotide binding site [chemical binding]; other site 491077005594 catalytic site [active] 491077005595 domain IV; other site 491077005596 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 491077005597 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 491077005598 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 491077005599 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 491077005600 active site 491077005601 catalytic residues [active] 491077005602 Domain of unknown function (DUF205); Region: DUF205; cl00410 491077005603 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 491077005604 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 491077005605 ATP binding site [chemical binding]; other site 491077005606 Mg2+ binding site [ion binding]; other site 491077005607 G-X-G motif; other site 491077005608 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 491077005609 anchoring element; other site 491077005610 dimer interface [polypeptide binding]; other site 491077005611 ATP binding site [chemical binding]; other site 491077005612 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 491077005613 active site 491077005614 putative metal-binding site [ion binding]; other site 491077005615 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 491077005616 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 491077005617 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...; Region: TOP4c; cd00187 491077005618 CAP-like domain; other site 491077005619 Active site [active] 491077005620 primary dimer interface [polypeptide binding]; other site 491077005621 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491077005622 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_18; cd04677 491077005623 nudix motif; other site 491077005624 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 491077005625 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair; cl09141 491077005626 DHHA2 domain; Region: DHHA2; pfam02833 491077005627 putative transposase OrfB; Reviewed; Region: PHA02517 491077005628 Integrase core domain; Region: rve; cl01316 491077005629 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 491077005630 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 491077005631 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 491077005632 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005633 Integrase core domain; Region: rve; cl01316 491077005634 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005635 Protein of unknown function (DUF322); Region: DUF322; cl00574 491077005636 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 491077005637 gluconate kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 491077005638 N- and C-terminal domain interface [polypeptide binding]; other site 491077005639 putative active site [active] 491077005640 catalytic site [active] 491077005641 metal binding site [ion binding]; metal-binding site 491077005642 carbohydrate binding site [chemical binding]; other site 491077005643 ATP binding site [chemical binding]; other site 491077005644 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491077005645 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491077005646 DNA binding site [nucleotide binding] 491077005647 domain linker motif; other site 491077005648 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 491077005649 putative dimerization interface [polypeptide binding]; other site 491077005650 putative ligand binding site [chemical binding]; other site 491077005651 GntP family permease; Region: GntP_permease; cl15264 491077005652 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 491077005653 Presynaptic Site I dimer interface [polypeptide binding]; other site 491077005654 catalytic residues [active] 491077005655 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 491077005656 Synaptic Flat tetramer interface [polypeptide binding]; other site 491077005657 Synaptic Site I dimer interface [polypeptide binding]; other site 491077005658 DNA binding site [nucleotide binding] 491077005659 Recombinase; Region: Recombinase; pfam07508 491077005660 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 491077005661 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 491077005662 Domain of unknown function (DUF955); Region: DUF955; cl01076 491077005663 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 491077005664 non-specific DNA binding site [nucleotide binding]; other site 491077005665 salt bridge; other site 491077005666 sequence-specific DNA binding site [nucleotide binding]; other site 491077005667 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 491077005668 BRO family, N-terminal domain; Region: Bro-N; cl10591 491077005669 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 491077005670 ERF superfamily; Region: ERF; pfam04404 491077005671 Protein of unknown function (DUF968); Region: DUF968; pfam06147 491077005672 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 491077005673 dimer interface [polypeptide binding]; other site 491077005674 ssDNA binding site [nucleotide binding]; other site 491077005675 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491077005676 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...; Region: AAA; cd00009 491077005677 Walker A motif; other site 491077005678 ATP binding site [chemical binding]; other site 491077005679 Walker B motif; other site 491077005680 arginine finger; other site 491077005681 chaperone protein DnaJ; Provisional; Region: PRK14293 491077005682 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 491077005683 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005684 Integrase core domain; Region: rve; cl01316 491077005685 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 491077005686 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 491077005687 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...; Region: HNHc; cl00083 491077005688 Phage terminase, small subunit; Region: Terminase_4; cl01525 491077005689 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 491077005690 Phage Terminase; Region: Terminase_1; pfam03354 491077005691 Phage-related protein [Function unknown]; Region: COG4695; cl01923 491077005692 Phage portal protein; Region: Phage_portal; pfam04860 491077005693 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 491077005694 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 491077005695 Phage capsid family; Region: Phage_capsid; pfam05065 491077005696 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 491077005697 oligomerization interface [polypeptide binding]; other site 491077005698 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 491077005699 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 491077005700 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 491077005701 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 491077005702 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 491077005703 Phage tail protein; Region: Sipho_tail; cl11462 491077005704 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 491077005705 Peptidase family M23; Region: Peptidase_M23; pfam01551 491077005706 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 491077005707 Domain of unknown function (DUF2479); Region: DUF2479; pfam10651 491077005708 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 491077005709 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 491077005710 active site 491077005711 Bacterial SH3 domain; Region: SH3_3; cl02551 491077005712 GntP family permease; Region: GntP_permease; cl15264 491077005713 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 491077005714 gluconate kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 491077005715 N- and C-terminal domain interface [polypeptide binding]; other site 491077005716 putative active site [active] 491077005717 catalytic site [active] 491077005718 metal binding site [ion binding]; metal-binding site 491077005719 carbohydrate binding site [chemical binding]; other site 491077005720 ATP binding site [chemical binding]; other site 491077005721 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 491077005722 Protein of unknown function (DUF805); Region: DUF805; cl01224 491077005723 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005724 Integrase core domain; Region: rve; cl01316 491077005725 GIY-YIG domain of uncharacterized bacterial protein structurally related to COG3410; Region: GIY-YIG_COG3410; cd10439 491077005726 GIY-YIG motif/motif A; other site 491077005727 putative active site [active] 491077005728 putative metal binding site [ion binding]; other site 491077005729 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077005730 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 491077005731 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005732 Integrase core domain; Region: rve; cl01316 491077005733 Uncharacterized conserved protein [Function unknown]; Region: COG3410 491077005734 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 491077005735 homodimer interface [polypeptide binding]; other site 491077005736 putative active site [active] 491077005737 catalytic site [active] 491077005738 Transposase IS200 like; Region: Y1_Tnp; cl00848 491077005739 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077005740 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077005741 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 491077005742 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...; Region: AAA; cd00009 491077005743 Walker A motif; other site 491077005744 ATP binding site [chemical binding]; other site 491077005745 Walker B motif; other site 491077005746 arginine finger; other site 491077005747 Integrase core domain; Region: rve; cl01316 491077005748 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005749 Integrase core domain; Region: rve; cl01316 491077005750 Probable transposase; Region: OrfB_IS605; pfam01385 491077005751 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 491077005752 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 491077005753 active site 491077005754 tetramer interface [polypeptide binding]; other site 491077005755 Ion transport protein; Region: Ion_trans; pfam00520 491077005756 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 491077005757 Domain of unknown function (DUF373); Region: DUF373; cl12079 491077005758 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 491077005759 D-galactonate transporter; Region: 2A0114; TIGR00893 491077005760 putative substrate translocation pore; other site 491077005761 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 491077005762 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 491077005763 CoenzymeA binding site [chemical binding]; other site 491077005764 subunit interaction site [polypeptide binding]; other site 491077005765 PHB binding site; other site 491077005766 dihydroxynaphthoic acid synthetase; Validated; Region: PRK07396 491077005767 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 491077005768 substrate binding site [chemical binding]; other site 491077005769 oxyanion hole (OAH) forming residues; other site 491077005770 trimer interface [polypeptide binding]; other site 491077005771 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 491077005772 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 491077005773 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005774 Integrase core domain; Region: rve; cl01316 491077005775 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 491077005776 Uncharacterised protein family (UPF0236); Region: UPF0236; pfam06782 491077005777 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 491077005778 ferrous iron transporter FeoB; Region: feoB; TIGR00437 491077005779 G1 box; other site 491077005780 GTP/Mg2+ binding site [chemical binding]; other site 491077005781 Switch I region; other site 491077005782 G2 box; other site 491077005783 G3 box; other site 491077005784 Switch II region; other site 491077005785 G4 box; other site 491077005786 G5 box; other site 491077005787 Nucleoside recognition; Region: Gate; cl00486 491077005788 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 491077005789 FeoA domain; Region: FeoA; cl00838 491077005790 FeS assembly ATPase SufC; Region: sufC; TIGR01978 491077005791 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 491077005792 Walker A/P-loop; other site 491077005793 ATP binding site [chemical binding]; other site 491077005794 Q-loop/lid; other site 491077005795 ABC transporter signature motif; other site 491077005796 Walker B; other site 491077005797 D-loop; other site 491077005798 H-loop/switch region; other site 491077005799 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 491077005800 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 491077005801 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 491077005802 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 491077005803 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491077005804 catalytic residue [active] 491077005805 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 491077005806 trimerization site [polypeptide binding]; other site 491077005807 active site 491077005808 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 491077005809 FeS assembly protein SufB; Region: sufB; TIGR01980 491077005810 Domain of unknown function DUF59; Region: DUF59; cl00941 491077005811 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 491077005812 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 491077005813 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 491077005814 active site 491077005815 phosphorylation site [posttranslational modification] 491077005816 intermolecular recognition site; other site 491077005817 dimerization interface [polypeptide binding]; other site 491077005818 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 491077005819 DNA binding residues [nucleotide binding] 491077005820 dimerization interface [polypeptide binding]; other site 491077005821 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005822 Integrase core domain; Region: rve; cl01316 491077005823 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 491077005824 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 491077005825 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 491077005826 active site 491077005827 motif I; other site 491077005828 motif II; other site 491077005829 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; cl11391 491077005830 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 491077005831 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 491077005832 Uncharacterized conserved protein [Function unknown]; Region: COG3270 491077005833 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 491077005834 potential frameshift: common BLAST hit: gi|148544133|ref|YP_001271503.1| signal transduction histidine kinase, LytS 491077005835 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 491077005836 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 491077005837 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 491077005838 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491077005839 NAD binding site [chemical binding]; other site 491077005840 dimer interface [polypeptide binding]; other site 491077005841 substrate binding site [chemical binding]; other site 491077005842 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 491077005843 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 491077005844 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491077005845 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491077005846 DNA binding site [nucleotide binding] 491077005847 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 491077005848 putative dimerization interface [polypeptide binding]; other site 491077005849 putative ligand binding site [chemical binding]; other site 491077005850 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 491077005851 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-...; Region: GH31; cl11402 491077005852 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 491077005853 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 491077005854 Integrase core domain; Region: rve; cl01316 491077005855 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 491077005856 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...; Region: AAA; cd00009 491077005857 Walker A motif; other site 491077005858 ATP binding site [chemical binding]; other site 491077005859 Walker B motif; other site 491077005860 arginine finger; other site 491077005861 Transposase domain (DUF772); Region: DUF772; cl12084 491077005862 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 491077005863 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 491077005864 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 491077005865 homotetramer interface [polypeptide binding]; other site 491077005866 FMN binding site [chemical binding]; other site 491077005867 homodimer contacts [polypeptide binding]; other site 491077005868 putative active site [active] 491077005869 putative substrate binding site [chemical binding]; other site 491077005870 Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 491077005871 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 491077005872 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 491077005873 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 491077005874 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 491077005875 mevalonate kinase; Region: mevalon_kin; TIGR00549 491077005876 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 491077005877 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 491077005878 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 491077005879 active site 491077005880 substrate binding site [chemical binding]; other site 491077005881 catalytic site [active] 491077005882 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077005883 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 491077005884 nucleotide binding region [chemical binding]; other site 491077005885 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077005886 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 491077005887 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 491077005888 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 491077005889 Predicted permeases [General function prediction only]; Region: RarD; COG2962 491077005890 EamA-like transporter family; Region: EamA; cl01037 491077005891 EamA-like transporter family; Region: EamA; cl01037 491077005892 Transglycosylase; Region: Transgly; cl07896 491077005893 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 491077005894 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 491077005895 Recombination protein U; Region: RecU; cl01314 491077005896 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 491077005897 cell division protein GpsB; Provisional; Region: PRK14127 491077005898 DivIVA domain; Region: DivI1A_domain; TIGR03544 491077005899 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 491077005900 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 491077005901 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 491077005902 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 491077005903 RNA/DNA hybrid binding site [nucleotide binding]; other site 491077005904 active site 491077005905 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 491077005906 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 491077005907 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 491077005908 RNA binding surface [nucleotide binding]; other site 491077005909 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...; Region: PseudoU_synth_RluCD_like; cd02869 491077005910 active site 491077005911 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 491077005912 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 491077005913 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 491077005914 catalytic site [active] 491077005915 subunit interface [polypeptide binding]; other site 491077005916 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 491077005917 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 491077005918 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 491077005919 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 491077005920 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 491077005921 Domain of unknown function (DUF814); Region: DUF814; pfam05670 491077005922 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005923 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 491077005924 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 491077005925 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 491077005926 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 491077005927 Ligand binding site [chemical binding]; other site 491077005928 metal binding site [ion binding]; metal-binding site 491077005929 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; cl14892 491077005930 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 491077005931 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 491077005932 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 491077005933 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 491077005934 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 491077005935 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair; cl09141 491077005936 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...; Region: Aldo_ket_red; cd06660 491077005937 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491077005938 active site 491077005939 catalytic tetrad [active] 491077005940 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491077005941 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077005942 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 491077005943 dimerization interface [polypeptide binding]; other site 491077005944 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005945 Integrase core domain; Region: rve; cl01316 491077005946 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 491077005947 Cupin domain; Region: Cupin_2; cl09118 491077005948 Protein of unknown function (DUF441); Region: DUF441; cl01041 491077005949 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 491077005950 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 491077005951 putative substrate translocation pore; other site 491077005952 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 491077005953 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077005954 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 491077005955 Domain of unknown function DUF21; Region: DUF21; pfam01595 491077005956 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 491077005957 Transporter associated domain; Region: CorC_HlyC; cl08393 491077005958 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 491077005959 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 491077005960 putative active site [active] 491077005961 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 491077005962 dimer interface [polypeptide binding]; other site 491077005963 metal binding site [ion binding]; metal-binding site 491077005964 CrcB-like protein; Region: CRCB; cl09114 491077005965 CrcB-like protein; Region: CRCB; cl09114 491077005966 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077005967 Walker A/P-loop; other site 491077005968 ATP binding site [chemical binding]; other site 491077005969 Q-loop/lid; other site 491077005970 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077005971 ABC transporter signature motif; other site 491077005972 Walker B; other site 491077005973 D-loop; other site 491077005974 H-loop/switch region; other site 491077005975 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077005976 Walker A/P-loop; other site 491077005977 ATP binding site [chemical binding]; other site 491077005978 Q-loop/lid; other site 491077005979 ABC transporter signature motif; other site 491077005980 Walker B; other site 491077005981 D-loop; other site 491077005982 H-loop/switch region; other site 491077005983 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 491077005984 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 491077005985 Uncharacterized conserved protein [Function unknown]; Region: COG3410 491077005986 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 491077005987 TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 491077005988 TPP-binding site; other site 491077005989 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 491077005990 PYR/PP interface [polypeptide binding]; other site 491077005991 dimer interface [polypeptide binding]; other site 491077005992 TPP binding site [chemical binding]; other site 491077005993 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 491077005994 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 491077005995 Amino acid permease; Region: AA_permease; pfam00324 491077005996 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 491077005997 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 491077005998 putative active site [active] 491077005999 catalytic site [active] 491077006000 Protein of unknown function (DUF454); Region: DUF454; cl01063 491077006001 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 491077006002 Protein of unknown function (DUF421); Region: DUF421; cl00990 491077006003 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; cl14892 491077006004 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl01450 491077006005 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 491077006006 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 491077006007 active site 491077006008 motif I; other site 491077006009 motif II; other site 491077006010 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; cl11391 491077006011 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 491077006012 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 491077006013 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 491077006014 potential frameshift: common BLAST hit: gi|148544206|ref|YP_001271576.1| alpha/beta hydrolase domain-containing protein 491077006015 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 491077006016 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 491077006017 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077006018 Integrase core domain; Region: rve; cl01316 491077006019 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 491077006020 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 491077006021 catalytic residues [active] 491077006022 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077006023 Integrase core domain; Region: rve; cl01316 491077006024 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077006025 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077006026 putative active site [active] 491077006027 putative NTP binding site [chemical binding]; other site 491077006028 putative nucleic acid binding site [nucleotide binding]; other site 491077006029 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077006030 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077006031 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077006032 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 491077006033 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 491077006034 Walker A/P-loop; other site 491077006035 ATP binding site [chemical binding]; other site 491077006036 Q-loop/lid; other site 491077006037 ABC transporter signature motif; other site 491077006038 Walker B; other site 491077006039 D-loop; other site 491077006040 H-loop/switch region; other site 491077006041 Putative exporter of polyketide antibiotics [Cell envelope biogenesis, outer membrane]; Region: TnrB3; COG3559 491077006042 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491077006043 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491077006044 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 491077006045 multiple promoter invertase; Provisional; Region: mpi; PRK13413 491077006046 catalytic residues [active] 491077006047 catalytic nucleophile [active] 491077006048 Presynaptic Site I dimer interface [polypeptide binding]; other site 491077006049 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 491077006050 Synaptic Flat tetramer interface [polypeptide binding]; other site 491077006051 Synaptic Site I dimer interface [polypeptide binding]; other site 491077006052 DNA binding site [nucleotide binding] 491077006053 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 491077006054 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077006055 Integrase core domain; Region: rve; cl01316 491077006056 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 491077006057 V-type ATP synthase subunit I; Validated; Region: PRK05771 491077006058 Aminoglycoside-2''-adenylyltransferase; Region: Aminoglyc_resit; pfam10706 491077006059 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 491077006060 RelB antitoxin; Region: RelB; cl01171 491077006061 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 491077006062 Phage integrase family; Region: Phage_integrase; pfam00589 491077006063 DNA binding site [nucleotide binding] 491077006064 Int/Topo IB signature motif; other site 491077006065 active site 491077006066 Replication protein; Region: Rep_1; cl02412 491077006067 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 491077006068 non-specific DNA binding site [nucleotide binding]; other site 491077006069 salt bridge; other site 491077006070 sequence-specific DNA binding site [nucleotide binding]; other site 491077006071 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 491077006072 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 491077006073 Phage integrase family; Region: Phage_integrase; pfam00589 491077006074 DNA binding site [nucleotide binding] 491077006075 Int/Topo IB signature motif; other site 491077006076 active site 491077006077 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 491077006078 Tet(M)-like subfamily. Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor...; Region: TetM_like; cd04168 491077006079 G1 box; other site 491077006080 putative GEF interaction site [polypeptide binding]; other site 491077006081 GTP/Mg2+ binding site [chemical binding]; other site 491077006082 Switch I region; other site 491077006083 G2 box; other site 491077006084 G3 box; other site 491077006085 Switch II region; other site 491077006086 G4 box; other site 491077006087 G5 box; other site 491077006088 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 491077006089 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines...; Region: Tet_like_IV; cd01684 491077006090 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a GTP-...; Region: Tet_C; cd03711 491077006091 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 491077006092 Membrane transport protein; Region: Mem_trans; cl09117 491077006093 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 491077006094 dimerization interface [polypeptide binding]; other site 491077006095 putative DNA binding site [nucleotide binding]; other site 491077006096 putative Zn2+ binding site [ion binding]; other site 491077006097 potential frameshift: common BLAST hit: gi|325956240|ref|YP_004286850.1| arsenate reductase 491077006098 Low molecular weight phosphatase family; Region: LMWPc; cl00105 491077006099 Low molecular weight phosphatase family; Region: LMWPc; cl00105 491077006100 Membrane transport protein; Region: Mem_trans; cl09117 491077006101 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 491077006102 dimerization interface [polypeptide binding]; other site 491077006103 putative DNA binding site [nucleotide binding]; other site 491077006104 putative Zn2+ binding site [ion binding]; other site 491077006105 Initiator Replication protein; Region: Rep_3; cl03080 491077006106 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 491077006107 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 491077006108 DNA binding site [nucleotide binding] 491077006109 Int/Topo IB signature motif; other site 491077006110 active site 491077006111 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 491077006112 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077006113 putative active site [active] 491077006114 putative NTP binding site [chemical binding]; other site 491077006115 putative nucleic acid binding site [nucleotide binding]; other site 491077006116 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077006117 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 491077006118 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...; Region: ParA; cd02042 491077006119 P-loop; other site 491077006120 Magnesium ion binding site [ion binding]; other site 491077006121 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...; Region: ParA; cd02042 491077006122 Magnesium ion binding site [ion binding]; other site 491077006123 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 491077006124 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 491077006125 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 491077006126 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 491077006127 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077006128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 491077006129 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 491077006130 ATP binding site [chemical binding]; other site 491077006131 putative Mg++ binding site [ion binding]; other site 491077006132 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 491077006133 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 491077006134 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; cl11391 491077006135 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 491077006136 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 491077006137 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 491077006138 dimerization interface [polypeptide binding]; other site 491077006139 putative DNA binding site [nucleotide binding]; other site 491077006140 putative Zn2+ binding site [ion binding]; other site 491077006141 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 491077006142 Cadmium resistance transporter; Region: Cad; cl04177