-- dump date 20140619_124453 -- 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 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077000003 Integrase core domain; Region: rve; pfam00665 491077000004 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06079 491077000005 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 491077000006 NAD binding site [chemical binding]; other site 491077000007 homotetramer interface [polypeptide binding]; other site 491077000008 homodimer interface [polypeptide binding]; other site 491077000009 substrate binding site [chemical binding]; other site 491077000010 active site 491077000011 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; COG0825 491077000012 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 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 ATP-grasp domain; Region: ATP-grasp_4; cl17255 491077000016 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 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-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 491077000033 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 491077000034 acyl carrier protein; Provisional; Region: acpP; PRK00982 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 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 491077000041 MarR family; Region: MarR_2; pfam12802 491077000042 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 491077000043 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 491077000044 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 491077000045 active site 491077000046 DNA binding site [nucleotide binding] 491077000047 Int/Topo IB signature motif; other site 491077000048 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; cl00236 491077000049 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077000050 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077000051 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 491077000052 active site 491077000053 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 491077000054 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 491077000055 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 491077000056 active site 491077000057 nucleophile elbow; other site 491077000058 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 491077000059 DNA binding site [nucleotide binding] 491077000060 Int/Topo IB signature motif; other site 491077000061 active site 491077000062 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 491077000063 EamA-like transporter family; Region: EamA; pfam00892 491077000064 EamA-like transporter family; Region: EamA; pfam00892 491077000065 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 491077000066 potential frameshift: common BLAST hit: gi|184153592|ref|YP_001841933.1| nitrate reductase delta subunit 491077000067 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 491077000068 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 491077000069 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 491077000070 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 491077000071 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 to...; Region: MopB_Nitrate-R-NarG-like; cd02750 491077000072 [4Fe-4S] binding site [ion binding]; other site 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...; Region: Molybdopterin-Binding; cl09928 491077000074 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 491077000075 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 491077000076 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 to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 491077000077 molybdopterin cofactor binding site; other site 491077000078 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 491077000079 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 491077000080 ATP binding site [chemical binding]; other site 491077000081 substrate interface [chemical binding]; other site 491077000082 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000083 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077000084 Integrase core domain; Region: rve; pfam00665 491077000085 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 491077000086 MPT binding site; other site 491077000087 trimer interface [polypeptide binding]; other site 491077000088 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 491077000089 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 491077000090 dimer interface [polypeptide binding]; other site 491077000091 putative functional site; other site 491077000092 putative MPT binding site; other site 491077000093 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 491077000094 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 491077000095 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 491077000096 GTP binding site; other site 491077000097 potential frameshift: common BLAST hit: gi|307127297|ref|YP_003879328.1| transposase 491077000098 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077000099 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077000100 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 491077000101 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-dependent...; Region: ClC_like; cd01033 491077000102 putative ion selectivity filter; other site 491077000103 putative pore gating glutamate residue; other site 491077000104 Transposase; Region: DEDD_Tnp_IS110; pfam01548 491077000105 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 491077000106 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 491077000107 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 491077000108 Homeodomain-like domain; Region: HTH_23; cl17451 491077000109 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077000110 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 491077000111 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077000112 Walker A motif; other site 491077000113 ATP binding site [chemical binding]; other site 491077000114 Walker B motif; other site 491077000115 arginine finger; other site 491077000116 potential frameshift: common BLAST hit: gi|148544274|ref|YP_001271644.1| integrase catalytic subunit 491077000117 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 491077000118 Integrase core domain; Region: rve; pfam00665 491077000119 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 491077000120 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077000121 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077000122 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000123 Integrase core domain; Region: rve; pfam00665 491077000124 putative alpha-glucosidase; Provisional; Region: PRK10658 491077000125 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 491077000126 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 491077000127 trimer interface [polypeptide binding]; other site 491077000128 active site 491077000129 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 491077000130 catalytic site [active] 491077000131 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 491077000132 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 491077000133 active site 491077000134 Bacterial lipoprotein; Region: DUF3642; pfam12182 491077000135 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 491077000136 catalytic core [active] 491077000137 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 491077000138 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 or...; Region: GlcN6P_deaminase; cd01399 491077000139 active site 491077000140 trimer interface [polypeptide binding]; other site 491077000141 allosteric site; other site 491077000142 active site lid [active] 491077000143 hexamer (dimer of trimers) interface [polypeptide binding]; other site 491077000144 Fic/DOC family; Region: Fic; pfam02661 491077000145 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 491077000146 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 491077000147 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 491077000148 putative active site [active] 491077000149 putative metal binding site [ion binding]; other site 491077000150 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 491077000151 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 491077000152 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 491077000153 Walker A/P-loop; other site 491077000154 ATP binding site [chemical binding]; other site 491077000155 Q-loop/lid; other site 491077000156 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491077000157 ABC transporter signature motif; other site 491077000158 Walker B; other site 491077000159 D-loop; other site 491077000160 H-loop/switch region; other site 491077000161 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 491077000162 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 491077000163 active site 491077000164 metal binding site [ion binding]; metal-binding site 491077000165 DNA binding site [nucleotide binding] 491077000166 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 491077000167 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 491077000168 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 491077000169 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 491077000170 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 491077000171 ATP binding site [chemical binding]; other site 491077000172 putative Mg++ binding site [ion binding]; other site 491077000173 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 491077000174 nucleotide binding region [chemical binding]; other site 491077000175 ATP-binding site [chemical binding]; other site 491077000176 type IV pilus biogenesis protein PilP; Region: pilP_fam; TIGR03021 491077000177 Rib/alpha-like repeat; Region: Rib; cl07159 491077000178 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 491077000179 PemK-like protein; Region: PemK; cl00995 491077000180 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077000181 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077000182 Probable transposase; Region: OrfB_IS605; pfam01385 491077000183 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 491077000184 Transposase IS200 like; Region: Y1_Tnp; pfam01797 491077000185 S-methylmethionine transporter; Provisional; Region: PRK11387 491077000186 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 491077000187 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 491077000188 T-box leader; HMPREF0538_nc20003 491077000189 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 491077000190 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 491077000191 Fic/DOC family; Region: Fic; cl00960 491077000192 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077000193 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 491077000194 potential frameshift: common BLAST hit: gi|148543390|ref|YP_001270760.1| transposase IS66 491077000195 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 491077000196 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 491077000197 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 491077000198 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 491077000199 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 491077000200 potential frameshift: common BLAST hit: gi|148544643|ref|YP_001272013.1| RNA-directed DNA polymerase (Reverse transcriptase) 491077000201 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077000202 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 491077000203 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 491077000204 putative NTP binding site [chemical binding]; other site 491077000205 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000206 Integrase core domain; Region: rve; pfam00665 491077000207 Domain of unknown function DUF87; Region: DUF87; pfam01935 491077000208 AAA-like domain; Region: AAA_10; pfam12846 491077000209 SIR2-like domain; Region: SIR2_2; pfam13289 491077000210 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000211 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077000212 Integrase core domain; Region: rve; pfam00665 491077000213 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077000214 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077000215 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 491077000216 Integrase core domain; Region: rve; pfam00665 491077000217 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 491077000218 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 491077000219 NADP binding site [chemical binding]; other site 491077000220 active site 491077000221 putative substrate binding site [chemical binding]; other site 491077000222 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 491077000223 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 491077000224 NAD binding site [chemical binding]; other site 491077000225 substrate binding site [chemical binding]; other site 491077000226 homodimer interface [polypeptide binding]; other site 491077000227 active site 491077000228 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077000229 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 491077000230 NAD(P) binding site [chemical binding]; other site 491077000231 active site 491077000232 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 491077000233 substrate binding site; other site 491077000234 dimer interface; other site 491077000235 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 491077000236 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 491077000237 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 491077000238 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491077000239 colanic acid exporter; Provisional; Region: PRK10459 491077000240 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 491077000241 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 491077000242 active site 491077000243 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 491077000244 active site 491077000245 UDP-D-galactose:(glucosyl)lipopolysaccharide-1, 6-D-galactosyltransferase; Provisional; Region: PRK09922 491077000246 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 491077000247 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 491077000248 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 491077000249 active site 491077000250 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 491077000251 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 491077000252 active site 491077000253 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 491077000254 Bacterial sugar transferase; Region: Bac_transf; pfam02397 491077000255 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077000256 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 491077000257 NAD(P) binding site [chemical binding]; other site 491077000258 active site 491077000259 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 491077000260 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 491077000261 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 491077000262 Chain length determinant protein; Region: Wzz; cl15801 491077000263 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 491077000264 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000265 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077000266 Integrase core domain; Region: rve; pfam00665 491077000267 glycerol kinase; Provisional; Region: glpK; PRK00047 491077000268 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 491077000269 N- and C-terminal domain interface [polypeptide binding]; other site 491077000270 active site 491077000271 MgATP binding site [chemical binding]; other site 491077000272 catalytic site [active] 491077000273 metal binding site [ion binding]; metal-binding site 491077000274 glycerol binding site [chemical binding]; other site 491077000275 homotetramer interface [polypeptide binding]; other site 491077000276 homodimer interface [polypeptide binding]; other site 491077000277 FBP binding site [chemical binding]; other site 491077000278 protein IIAGlc interface [polypeptide binding]; other site 491077000279 4-oxalocrotonate tautomerase; Provisional; Region: PRK02220 491077000280 active site 1 [active] 491077000281 dimer interface [polypeptide binding]; other site 491077000282 hexamer interface [polypeptide binding]; other site 491077000283 active site 2 [active] 491077000284 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 491077000285 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 491077000286 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 491077000287 TrkA-N domain; Region: TrkA_N; pfam02254 491077000288 TrkA-C domain; Region: TrkA_C; pfam02080 491077000289 Peptidase family C69; Region: Peptidase_C69; pfam03577 491077000290 putative alkyl hydroperoxide reductase F subunit; Region: AhpF_homolog; TIGR03143 491077000291 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491077000292 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491077000293 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 reduction...; Region: AhpF_NTD_N; cd02974 491077000294 catalytic residue [active] 491077000295 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 491077000296 catalytic residues [active] 491077000297 peroxiredoxin; Region: AhpC; TIGR03137 491077000298 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 491077000299 dimer interface [polypeptide binding]; other site 491077000300 decamer (pentamer of dimers) interface [polypeptide binding]; other site 491077000301 catalytic triad [active] 491077000302 peroxidatic and resolving cysteines [active] 491077000303 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 491077000304 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 491077000305 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 491077000306 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 491077000307 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077000308 putative active site [active] 491077000309 putative NTP binding site [chemical binding]; other site 491077000310 putative nucleic acid binding site [nucleotide binding]; other site 491077000311 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077000312 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077000313 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077000314 Probable transposase; Region: OrfB_IS605; pfam01385 491077000315 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 491077000316 Piccolo Zn-finger; Region: zf-piccolo; pfam05715 491077000317 Transposase IS200 like; Region: Y1_Tnp; pfam01797 491077000318 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 491077000319 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 491077000320 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 491077000321 active site 491077000322 metal binding site [ion binding]; metal-binding site 491077000323 drug efflux system protein MdtG; Provisional; Region: PRK09874 491077000324 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 491077000325 putative substrate translocation pore; other site 491077000326 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 491077000327 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 491077000328 S-adenosylmethionine binding site [chemical binding]; other site 491077000329 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 491077000330 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077000331 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077000332 Probable transposase; Region: OrfB_IS605; pfam01385 491077000333 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 491077000334 Transposase IS200 like; Region: Y1_Tnp; pfam01797 491077000335 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 491077000336 UbiA prenyltransferase family; Region: UbiA; pfam01040 491077000337 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 491077000338 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 491077000339 substrate binding pocket [chemical binding]; other site 491077000340 chain length determination region; other site 491077000341 substrate-Mg2+ binding site; other site 491077000342 catalytic residues [active] 491077000343 aspartate-rich region 1; other site 491077000344 active site lid residues [active] 491077000345 aspartate-rich region 2; other site 491077000346 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 491077000347 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 491077000348 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 491077000349 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 491077000350 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 491077000351 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 491077000352 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 491077000353 HPr interaction site; other site 491077000354 glycerol kinase (GK) interaction site [polypeptide binding]; other site 491077000355 active site 491077000356 phosphorylation site [posttranslational modification] 491077000357 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491077000358 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491077000359 DNA binding site [nucleotide binding] 491077000360 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 491077000361 putative dimerization interface [polypeptide binding]; other site 491077000362 putative ligand binding site [chemical binding]; other site 491077000363 Glucokinase; Region: Glucokinase; cl17310 491077000364 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 491077000365 active site 491077000366 putative catalytic site [active] 491077000367 DNA binding site [nucleotide binding] 491077000368 putative phosphate binding site [ion binding]; other site 491077000369 metal binding site A [ion binding]; metal-binding site 491077000370 AP binding site [nucleotide binding]; other site 491077000371 metal binding site B [ion binding]; metal-binding site 491077000372 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u3; cd11540 491077000373 putative metal binding site [ion binding]; other site 491077000374 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 491077000375 potential frameshift: common BLAST hit: gi|326803797|ref|YP_004321615.1| transposase, IS116/IS110/IS902 family 491077000376 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 491077000377 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 491077000378 Transposase; Region: DEDD_Tnp_IS110; pfam01548 491077000379 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 491077000380 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 491077000381 potential frameshift: common BLAST hit: gi|148544374|ref|YP_001271744.1| amino acid permease-associated region 491077000382 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 491077000383 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 491077000384 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 491077000385 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 491077000386 RimM N-terminal domain; Region: RimM; pfam01782 491077000387 PRC-barrel domain; Region: PRC; pfam05239 491077000388 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 491077000389 KH domain; Region: KH_4; pfam13083 491077000390 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 491077000391 signal recognition particle protein; Provisional; Region: PRK10867 491077000392 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 491077000393 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 491077000394 P loop; other site 491077000395 GTP binding site [chemical binding]; other site 491077000396 Signal peptide binding domain; Region: SRP_SPB; pfam02978 491077000397 putative DNA-binding protein; Validated; Region: PRK00118 491077000398 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 491077000399 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 491077000400 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 491077000401 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 491077000402 P loop; other site 491077000403 GTP binding site [chemical binding]; other site 491077000404 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 491077000405 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 491077000406 Walker A/P-loop; other site 491077000407 ATP binding site [chemical binding]; other site 491077000408 Q-loop/lid; other site 491077000409 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 491077000410 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 491077000411 ABC transporter signature motif; other site 491077000412 Walker B; other site 491077000413 D-loop; other site 491077000414 H-loop/switch region; other site 491077000415 ribonuclease III; Reviewed; Region: rnc; PRK00102 491077000416 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 491077000417 dimerization interface [polypeptide binding]; other site 491077000418 active site 491077000419 metal binding site [ion binding]; metal-binding site 491077000420 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 491077000421 dsRNA binding site [nucleotide binding]; other site 491077000422 acyl carrier protein; Provisional; Region: acpP; PRK00982 491077000423 putative phosphate acyltransferase; Provisional; Region: PRK05331 491077000424 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 491077000425 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 491077000426 generic binding surface II; other site 491077000427 ssDNA binding site; other site 491077000428 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 491077000429 ATP binding site [chemical binding]; other site 491077000430 putative Mg++ binding site [ion binding]; other site 491077000431 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 491077000432 nucleotide binding region [chemical binding]; other site 491077000433 ATP-binding site [chemical binding]; other site 491077000434 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 491077000435 DAK2 domain; Region: Dak2; pfam02734 491077000436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 491077000437 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 491077000438 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 491077000439 Thiamine pyrophosphokinase; Region: TPK; cd07995 491077000440 active site 491077000441 dimerization interface [polypeptide binding]; other site 491077000442 thiamine binding site [chemical binding]; other site 491077000443 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 491077000444 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 491077000445 substrate binding site [chemical binding]; other site 491077000446 hexamer interface [polypeptide binding]; other site 491077000447 metal binding site [ion binding]; metal-binding site 491077000448 GTPase RsgA; Reviewed; Region: PRK00098 491077000449 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 491077000450 RNA binding site [nucleotide binding]; other site 491077000451 homodimer interface [polypeptide binding]; other site 491077000452 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 491077000453 GTPase/Zn-binding domain interface [polypeptide binding]; other site 491077000454 GTP/Mg2+ binding site [chemical binding]; other site 491077000455 G4 box; other site 491077000456 G5 box; other site 491077000457 G1 box; other site 491077000458 Switch I region; other site 491077000459 G2 box; other site 491077000460 G3 box; other site 491077000461 Switch II region; other site 491077000462 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 491077000463 Catalytic domain of Protein Kinases; Region: PKc; cd00180 491077000464 active site 491077000465 ATP binding site [chemical binding]; other site 491077000466 substrate binding site [chemical binding]; other site 491077000467 activation loop (A-loop); other site 491077000468 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 491077000469 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 491077000470 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 491077000471 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 491077000472 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 491077000473 active site 491077000474 16S rRNA methyltransferase B; Provisional; Region: PRK14902 491077000475 NusB family; Region: NusB; pfam01029 491077000476 putative RNA binding site [nucleotide binding]; other site 491077000477 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 491077000478 S-adenosylmethionine binding site [chemical binding]; other site 491077000479 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 491077000480 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 491077000481 putative active site [active] 491077000482 substrate binding site [chemical binding]; other site 491077000483 putative cosubstrate binding site; other site 491077000484 catalytic site [active] 491077000485 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 491077000486 substrate binding site [chemical binding]; other site 491077000487 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 491077000488 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 491077000489 ATP binding site [chemical binding]; other site 491077000490 putative Mg++ binding site [ion binding]; other site 491077000491 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 491077000492 nucleotide binding region [chemical binding]; other site 491077000493 ATP-binding site [chemical binding]; other site 491077000494 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 491077000495 Flavoprotein; Region: Flavoprotein; pfam02441 491077000496 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 491077000497 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 491077000498 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 491077000499 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 491077000500 catalytic site [active] 491077000501 G-X2-G-X-G-K; other site 491077000502 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 491077000503 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 491077000504 Walker A/P-loop; other site 491077000505 ATP binding site [chemical binding]; other site 491077000506 Q-loop/lid; other site 491077000507 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 491077000508 ABC transporter signature motif; other site 491077000509 Walker B; other site 491077000510 D-loop; other site 491077000511 H-loop/switch region; other site 491077000512 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 491077000513 arginine repressor; Provisional; Region: PRK04280 491077000514 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 491077000515 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 491077000516 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 491077000517 RNA binding surface [nucleotide binding]; other site 491077000518 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 491077000519 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 491077000520 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 491077000521 substrate binding pocket [chemical binding]; other site 491077000522 chain length determination region; other site 491077000523 substrate-Mg2+ binding site; other site 491077000524 catalytic residues [active] 491077000525 aspartate-rich region 1; other site 491077000526 active site lid residues [active] 491077000527 aspartate-rich region 2; other site 491077000528 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 491077000529 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 491077000530 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 491077000531 generic binding surface II; other site 491077000532 generic binding surface I; other site 491077000533 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 491077000534 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 491077000535 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 491077000536 homodimer interface [polypeptide binding]; other site 491077000537 NADP binding site [chemical binding]; other site 491077000538 substrate binding site [chemical binding]; other site 491077000539 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 491077000540 Asp23 family; Region: Asp23; pfam03780 491077000541 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 491077000542 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 491077000543 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 491077000544 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 491077000545 active site 491077000546 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 491077000547 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 491077000548 catalytic residue [active] 491077000549 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 491077000550 Protein of unknown function (DUF464); Region: DUF464; pfam04327 491077000551 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 491077000552 Transposase; Region: DEDD_Tnp_IS110; pfam01548 491077000553 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 491077000554 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 491077000555 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 491077000556 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491077000557 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 491077000558 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 491077000559 methionine sulfoxide reductase A; Provisional; Region: PRK14054 491077000560 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 491077000561 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 491077000562 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000563 Integrase core domain; Region: rve; pfam00665 491077000564 potential frameshift: common BLAST hit: gi|148544424|ref|YP_001271794.1| aminotransferase 491077000565 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 491077000566 homodimer interface [polypeptide binding]; other site 491077000567 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077000568 catalytic residue [active] 491077000569 aromatic amino acid aminotransferase; Validated; Region: PRK07309 491077000570 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 491077000571 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 491077000572 active site 491077000573 HIGH motif; other site 491077000574 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 491077000575 active site 491077000576 KMSKS motif; other site 491077000577 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 491077000578 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 491077000579 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 491077000580 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 491077000581 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 491077000582 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 491077000583 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 491077000584 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 491077000585 active site residue [active] 491077000586 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 491077000587 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 491077000588 nucleotide binding site [chemical binding]; other site 491077000589 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 491077000590 Rhomboid family; Region: Rhomboid; pfam01694 491077000591 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 491077000592 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 491077000593 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 491077000594 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 491077000595 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 491077000596 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 491077000597 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 491077000598 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 491077000599 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000600 Integrase core domain; Region: rve; pfam00665 491077000601 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077000602 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077000603 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 491077000604 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 491077000605 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 491077000606 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 491077000607 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 491077000608 Sugar specificity; other site 491077000609 Pyrimidine base specificity; other site 491077000610 ATP-binding site [chemical binding]; other site 491077000611 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 491077000612 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 491077000613 NlpC/P60 family; Region: NLPC_P60; pfam00877 491077000614 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 491077000615 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 491077000616 putative tRNA-binding site [nucleotide binding]; other site 491077000617 B3/4 domain; Region: B3_4; pfam03483 491077000618 tRNA synthetase B5 domain; Region: B5; smart00874 491077000619 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 491077000620 dimer interface [polypeptide binding]; other site 491077000621 motif 1; other site 491077000622 motif 3; other site 491077000623 motif 2; other site 491077000624 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 491077000625 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 491077000626 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 491077000627 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 491077000628 dimer interface [polypeptide binding]; other site 491077000629 motif 1; other site 491077000630 active site 491077000631 motif 2; other site 491077000632 motif 3; other site 491077000633 T-box leader; HMPREF0538_nc20006 491077000634 Predicted transcriptional regulators [Transcription]; Region: COG1733 491077000635 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 491077000636 HD domain; Region: HD; pfam01966 491077000637 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 491077000638 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 491077000639 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 491077000640 Acylphosphatase; Region: Acylphosphatase; pfam00708 491077000641 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 491077000642 OxaA-like protein precursor; Provisional; Region: PRK02463 491077000643 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 491077000644 active site 491077000645 catalytic residues [active] 491077000646 metal binding site [ion binding]; metal-binding site 491077000647 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 491077000648 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 491077000649 inner membrane transporter YjeM; Provisional; Region: PRK15238 491077000650 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 491077000651 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 491077000652 dimerization interface [polypeptide binding]; other site 491077000653 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 491077000654 dimer interface [polypeptide binding]; other site 491077000655 phosphorylation site [posttranslational modification] 491077000656 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 491077000657 ATP binding site [chemical binding]; other site 491077000658 Mg2+ binding site [ion binding]; other site 491077000659 G-X-G motif; other site 491077000660 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491077000661 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 491077000662 active site 491077000663 phosphorylation site [posttranslational modification] 491077000664 intermolecular recognition site; other site 491077000665 dimerization interface [polypeptide binding]; other site 491077000666 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 491077000667 DNA binding site [nucleotide binding] 491077000668 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000669 Integrase core domain; Region: rve; pfam00665 491077000670 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 491077000671 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 491077000672 hypothetical protein; Provisional; Region: PRK13670 491077000673 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 491077000674 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 491077000675 S-adenosylmethionine binding site [chemical binding]; other site 491077000676 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 491077000677 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 491077000678 Zn2+ binding site [ion binding]; other site 491077000679 Mg2+ binding site [ion binding]; other site 491077000680 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 491077000681 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 491077000682 active site 491077000683 (T/H)XGH motif; other site 491077000684 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 491077000685 GTPase YqeH; Provisional; Region: PRK13796 491077000686 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 491077000687 GTP/Mg2+ binding site [chemical binding]; other site 491077000688 G4 box; other site 491077000689 G5 box; other site 491077000690 G1 box; other site 491077000691 Switch I region; other site 491077000692 G2 box; other site 491077000693 G3 box; other site 491077000694 Switch II region; other site 491077000695 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 491077000696 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 491077000697 active site 491077000698 motif I; other site 491077000699 motif II; other site 491077000700 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 491077000701 23S rRNA binding site [nucleotide binding]; other site 491077000702 L21 binding site [polypeptide binding]; other site 491077000703 L13 binding site [polypeptide binding]; other site 491077000704 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 491077000705 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 491077000706 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 491077000707 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 491077000708 Ribosomal protein L20 leader; HMPREF0538_nc20007 491077000709 primosomal protein DnaI; Reviewed; Region: PRK08939 491077000710 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 491077000711 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077000712 Walker A motif; other site 491077000713 ATP binding site [chemical binding]; other site 491077000714 Walker B motif; other site 491077000715 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 491077000716 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 491077000717 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 491077000718 ATP cone domain; Region: ATP-cone; pfam03477 491077000719 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 491077000720 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 491077000721 CoA-binding site [chemical binding]; other site 491077000722 ATP-binding [chemical binding]; other site 491077000723 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 491077000724 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 491077000725 DNA binding site [nucleotide binding] 491077000726 catalytic residue [active] 491077000727 H2TH interface [polypeptide binding]; other site 491077000728 putative catalytic residues [active] 491077000729 turnover-facilitating residue; other site 491077000730 intercalation triad [nucleotide binding]; other site 491077000731 8OG recognition residue [nucleotide binding]; other site 491077000732 putative reading head residues; other site 491077000733 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 491077000734 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 491077000735 DNA polymerase I; Provisional; Region: PRK05755 491077000736 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 491077000737 active site 491077000738 metal binding site 1 [ion binding]; metal-binding site 491077000739 putative 5' ssDNA interaction site; other site 491077000740 metal binding site 3; metal-binding site 491077000741 metal binding site 2 [ion binding]; metal-binding site 491077000742 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 491077000743 putative DNA binding site [nucleotide binding]; other site 491077000744 putative metal binding site [ion binding]; other site 491077000745 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 491077000746 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 491077000747 active site 491077000748 DNA binding site [nucleotide binding] 491077000749 catalytic site [active] 491077000750 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 491077000751 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000752 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077000753 Integrase core domain; Region: rve; pfam00665 491077000754 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 491077000755 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 491077000756 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 491077000757 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 491077000758 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491077000759 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 491077000760 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 491077000761 putative tRNA-binding site [nucleotide binding]; other site 491077000762 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 491077000763 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 491077000764 catalytic residues [active] 491077000765 Predicted small secreted protein [Function unknown]; Region: COG5584 491077000766 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 491077000767 Helix-turn-helix domain; Region: HTH_28; pfam13518 491077000768 putative transposase OrfB; Reviewed; Region: PHA02517 491077000769 HTH-like domain; Region: HTH_21; pfam13276 491077000770 Integrase core domain; Region: rve; pfam00665 491077000771 Integrase core domain; Region: rve_3; pfam13683 491077000772 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 491077000773 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 491077000774 S-adenosylmethionine binding site [chemical binding]; other site 491077000775 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 491077000776 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 491077000777 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 491077000778 Walker A/P-loop; other site 491077000779 ATP binding site [chemical binding]; other site 491077000780 Q-loop/lid; other site 491077000781 ABC transporter signature motif; other site 491077000782 Walker B; other site 491077000783 D-loop; other site 491077000784 H-loop/switch region; other site 491077000785 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 491077000786 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 491077000787 HIT family signature motif; other site 491077000788 catalytic residue [active] 491077000789 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 491077000790 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077000791 putative active site [active] 491077000792 putative NTP binding site [chemical binding]; other site 491077000793 putative nucleic acid binding site [nucleotide binding]; other site 491077000794 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077000795 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK02998 491077000796 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 491077000797 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491077000798 Walker A/P-loop; other site 491077000799 ATP binding site [chemical binding]; other site 491077000800 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 491077000801 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 491077000802 active site 491077000803 metal binding site [ion binding]; metal-binding site 491077000804 DNA binding site [nucleotide binding] 491077000805 Protein of unknown function (DUF964); Region: DUF964; cl01483 491077000806 Transglycosylase; Region: Transgly; pfam00912 491077000807 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 491077000808 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 491077000809 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 491077000810 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 491077000811 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 491077000812 active site 491077000813 HIGH motif; other site 491077000814 KMSK motif region; other site 491077000815 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 491077000816 tRNA binding surface [nucleotide binding]; other site 491077000817 anticodon binding site; other site 491077000818 T-box leader; HMPREF0538_nc20009 491077000819 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000820 Integrase core domain; Region: rve; pfam00665 491077000821 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 491077000822 dimer interface [polypeptide binding]; other site 491077000823 substrate binding site [chemical binding]; other site 491077000824 ATP binding site [chemical binding]; other site 491077000825 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 491077000826 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 491077000827 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491077000828 NAD binding site [chemical binding]; other site 491077000829 dimer interface [polypeptide binding]; other site 491077000830 substrate binding site [chemical binding]; other site 491077000831 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 491077000832 dihydropteroate synthase; Region: DHPS; TIGR01496 491077000833 substrate binding pocket [chemical binding]; other site 491077000834 dimer interface [polypeptide binding]; other site 491077000835 inhibitor binding site; inhibition site 491077000836 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 491077000837 active site 491077000838 dimerization interface [polypeptide binding]; other site 491077000839 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 491077000840 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491077000841 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 491077000842 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 491077000843 GTP cyclohydrolase I; Provisional; Region: PLN03044 491077000844 active site 491077000845 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 491077000846 catalytic center binding site [active] 491077000847 ATP binding site [chemical binding]; other site 491077000848 Dihydroneopterin aldolase; Region: FolB; pfam02152 491077000849 active site 491077000850 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 491077000851 Putative heavy-metal-binding; Region: YbjQ_1; pfam01906 491077000852 CAAX protease self-immunity; Region: Abi; pfam02517 491077000853 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 491077000854 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077000855 putative active site [active] 491077000856 putative NTP binding site [chemical binding]; other site 491077000857 putative nucleic acid binding site [nucleotide binding]; other site 491077000858 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077000859 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 491077000860 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 nucleotides...; Region: ribokinase; cd01174 491077000861 substrate binding site [chemical binding]; other site 491077000862 dimer interface [polypeptide binding]; other site 491077000863 ATP binding site [chemical binding]; other site 491077000864 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491077000865 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491077000866 DNA binding site [nucleotide binding] 491077000867 domain linker motif; other site 491077000868 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 491077000869 dimerization interface [polypeptide binding]; other site 491077000870 ligand binding site [chemical binding]; other site 491077000871 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 491077000872 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 2.7.1; Region: dNK; cd01673 491077000873 Substrate-binding site [chemical binding]; other site 491077000874 Substrate specificity [chemical binding]; other site 491077000875 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 491077000876 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 491077000877 Ligand Binding Site [chemical binding]; other site 491077000878 dipeptidase PepV; Reviewed; Region: PRK07318 491077000879 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 491077000880 active site 491077000881 metal binding site [ion binding]; metal-binding site 491077000882 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 491077000883 putative substrate binding site [chemical binding]; other site 491077000884 putative ATP binding site [chemical binding]; other site 491077000885 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 491077000886 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 491077000887 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 491077000888 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 491077000889 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 491077000890 HIGH motif; other site 491077000891 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 491077000892 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 491077000893 active site 491077000894 KMSKS motif; other site 491077000895 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 491077000896 tRNA binding surface [nucleotide binding]; other site 491077000897 S-adenosylmethionine synthetase; Validated; Region: PRK05250 491077000898 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 491077000899 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 491077000900 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 491077000901 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 491077000902 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 491077000903 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491077000904 putative substrate translocation pore; other site 491077000905 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 491077000906 metal binding site 2 [ion binding]; metal-binding site 491077000907 putative DNA binding helix; other site 491077000908 metal binding site 1 [ion binding]; metal-binding site 491077000909 dimer interface [polypeptide binding]; other site 491077000910 structural Zn2+ binding site [ion binding]; other site 491077000911 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 491077000912 VanZ like family; Region: VanZ; pfam04892 491077000913 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 491077000914 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 491077000915 DNA polymerase IV; Reviewed; Region: PRK03103 491077000916 Y-family of DNA polymerases; Region: PolY; cl12025 491077000917 active site 491077000918 DNA binding site [nucleotide binding] 491077000919 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 491077000920 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 491077000921 putative dimer interface [polypeptide binding]; other site 491077000922 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 491077000923 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491077000924 active site 491077000925 catalytic tetrad [active] 491077000926 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 491077000927 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 491077000928 homodimer interface [polypeptide binding]; other site 491077000929 active site 491077000930 FMN binding site [chemical binding]; other site 491077000931 substrate binding site [chemical binding]; other site 491077000932 4Fe-4S binding domain; Region: Fer4; pfam00037 491077000933 4Fe-4S binding domain; Region: Fer4; pfam00037 491077000934 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 491077000935 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 491077000936 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491077000937 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 491077000938 putative metal binding site [ion binding]; other site 491077000939 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000940 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077000941 Integrase core domain; Region: rve; pfam00665 491077000942 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 491077000943 active site 491077000944 putative catalytic site [active] 491077000945 AP binding site [nucleotide binding]; other site 491077000946 DNA binding site [nucleotide binding] 491077000947 putative phosphate binding site [ion binding]; other site 491077000948 metal binding site B [ion binding]; metal-binding site 491077000949 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 491077000950 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077000951 putative active site [active] 491077000952 putative NTP binding site [chemical binding]; other site 491077000953 putative nucleic acid binding site [nucleotide binding]; other site 491077000954 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077000955 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 491077000956 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 491077000957 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000958 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077000959 Integrase core domain; Region: rve; pfam00665 491077000960 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 491077000961 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 491077000962 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 491077000963 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 491077000964 FeS/SAM binding site; other site 491077000965 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 491077000966 ATP cone domain; Region: ATP-cone; pfam03477 491077000967 Class III ribonucleotide reductase; Region: RNR_III; cd01675 491077000968 effector binding site; other site 491077000969 active site 491077000970 Zn binding site [ion binding]; other site 491077000971 glycine loop; other site 491077000972 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077000973 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077000974 Integrase core domain; Region: rve; pfam00665 491077000975 potential frameshift: common BLAST hit: gi|148544542|ref|YP_001271912.1| EmrB/QacA family drug resistance transporter 491077000976 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 491077000977 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 491077000978 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491077000979 Coenzyme A binding pocket [chemical binding]; other site 491077000980 Protein of unknown function (DUF1797); Region: DUF1797; pfam08796 491077000981 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 491077000982 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491077000983 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 491077000984 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491077000985 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; Region: GT1_UGDG_like; cd03817 491077000986 putative ADP-binding pocket [chemical binding]; other site 491077000987 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 491077000988 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 491077000989 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 491077000990 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 491077000991 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 491077000992 dimerization domain swap beta strand [polypeptide binding]; other site 491077000993 regulatory protein interface [polypeptide binding]; other site 491077000994 active site 491077000995 regulatory phosphorylation site [posttranslational modification]; other site 491077000996 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077000997 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 491077000998 Walker A motif; other site 491077000999 ATP binding site [chemical binding]; other site 491077001000 Walker B motif; other site 491077001001 arginine finger; other site 491077001002 UvrB/uvrC motif; Region: UVR; pfam02151 491077001003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077001004 Walker A motif; other site 491077001005 ATP binding site [chemical binding]; other site 491077001006 Walker B motif; other site 491077001007 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 491077001008 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 491077001009 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 491077001010 Predicted membrane protein [Function unknown]; Region: COG4684 491077001011 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 491077001012 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001013 Integrase core domain; Region: rve; pfam00665 491077001014 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 491077001015 Bacterial SH3 domain; Region: SH3_3; cl17532 491077001016 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 491077001017 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 491077001018 Walker A/P-loop; other site 491077001019 ATP binding site [chemical binding]; other site 491077001020 Q-loop/lid; other site 491077001021 ABC transporter signature motif; other site 491077001022 Walker B; other site 491077001023 D-loop; other site 491077001024 H-loop/switch region; other site 491077001025 Predicted transcriptional regulators [Transcription]; Region: COG1725 491077001026 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491077001027 DNA-binding site [nucleotide binding]; DNA binding site 491077001028 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077001029 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077001030 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 491077001031 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 491077001032 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 491077001033 MucBP domain; Region: MucBP; pfam06458 491077001034 MucBP domain; Region: MucBP; pfam06458 491077001035 MucBP domain; Region: MucBP; pfam06458 491077001036 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 491077001037 Peptidase family M23; Region: Peptidase_M23; pfam01551 491077001038 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 491077001039 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 491077001040 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 491077001041 NlpC/P60 family; Region: NLPC_P60; cl17555 491077001042 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 491077001043 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 491077001044 G1 box; other site 491077001045 putative GEF interaction site [polypeptide binding]; other site 491077001046 GTP/Mg2+ binding site [chemical binding]; other site 491077001047 Switch I region; other site 491077001048 G2 box; other site 491077001049 G3 box; other site 491077001050 Switch II region; other site 491077001051 G4 box; other site 491077001052 G5 box; other site 491077001053 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 491077001054 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001055 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077001056 Integrase core domain; Region: rve; pfam00665 491077001057 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 491077001058 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 491077001059 Domain of unknown function DUF20; Region: UPF0118; pfam01594 491077001060 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 491077001061 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 491077001062 amidase catalytic site [active] 491077001063 Zn binding residues [ion binding]; other site 491077001064 substrate binding site [chemical binding]; other site 491077001065 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 491077001066 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 491077001067 NADP binding site [chemical binding]; other site 491077001068 active site 491077001069 putative substrate binding site [chemical binding]; other site 491077001070 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 491077001071 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 491077001072 NAD binding site [chemical binding]; other site 491077001073 substrate binding site [chemical binding]; other site 491077001074 homodimer interface [polypeptide binding]; other site 491077001075 active site 491077001076 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 491077001077 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 491077001078 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 491077001079 substrate binding site; other site 491077001080 tetramer interface; other site 491077001081 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 491077001082 Alg9-like mannosyltransferase family; Region: Glyco_transf_22; cl17751 491077001083 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 491077001084 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 491077001085 Ligand binding site; other site 491077001086 Putative Catalytic site; other site 491077001087 DXD motif; other site 491077001088 Acyltransferase family; Region: Acyl_transf_3; pfam01757 491077001089 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 491077001090 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_b; cd04185 491077001091 Probable Catalytic site; other site 491077001092 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 491077001093 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 491077001094 active site 491077001095 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 491077001096 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 491077001097 Probable Catalytic site; other site 491077001098 Chain length determinant protein; Region: Wzz; cl15801 491077001099 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 491077001100 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 491077001101 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 491077001102 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 491077001103 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 491077001104 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 491077001105 UDP-galactopyranose mutase; Region: GLF; pfam03275 491077001106 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 491077001107 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 491077001108 putative active site [active] 491077001109 Peptidase family M23; Region: Peptidase_M23; pfam01551 491077001110 Bacterial sugar transferase; Region: Bac_transf; pfam02397 491077001111 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 491077001112 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 491077001113 Ligand binding site; other site 491077001114 Putative Catalytic site; other site 491077001115 DXD motif; other site 491077001116 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 491077001117 recombination regulator RecX; Provisional; Region: recX; PRK14135 491077001118 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 491077001119 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 491077001120 inner membrane transporter YjeM; Provisional; Region: PRK15238 491077001121 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 491077001122 transaminase; Validated; Region: PRK07324 491077001123 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 491077001124 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077001125 homodimer interface [polypeptide binding]; other site 491077001126 catalytic residue [active] 491077001127 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 491077001128 active site 491077001129 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 491077001130 Predicted membrane protein [Function unknown]; Region: COG2246 491077001131 GtrA-like protein; Region: GtrA; pfam04138 491077001132 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077001133 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077001134 Probable transposase; Region: OrfB_IS605; pfam01385 491077001135 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 491077001136 Piccolo Zn-finger; Region: zf-piccolo; pfam05715 491077001137 Transposase IS200 like; Region: Y1_Tnp; pfam01797 491077001138 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 491077001139 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 491077001140 active site 491077001141 homodimer interface [polypeptide binding]; other site 491077001142 DEAD-like helicases superfamily; Region: DEXDc; smart00487 491077001143 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 491077001144 ATP binding site [chemical binding]; other site 491077001145 putative Mg++ binding site [ion binding]; other site 491077001146 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 491077001147 nucleotide binding region [chemical binding]; other site 491077001148 ATP-binding site [chemical binding]; other site 491077001149 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491077001150 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491077001151 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 491077001152 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 491077001153 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 491077001154 NAD(P) binding site [chemical binding]; other site 491077001155 LDH/MDH dimer interface [polypeptide binding]; other site 491077001156 substrate binding site [chemical binding]; other site 491077001157 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 491077001158 Protein of unknown function (DUF3114); Region: DUF3114; pfam11311 491077001159 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491077001160 Coenzyme A binding pocket [chemical binding]; other site 491077001161 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 491077001162 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 491077001163 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 491077001164 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491077001165 Coenzyme A binding pocket [chemical binding]; other site 491077001166 LytTr DNA-binding domain; Region: LytTR; smart00850 491077001167 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 491077001168 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 491077001169 substrate binding site [chemical binding]; other site 491077001170 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 491077001171 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 491077001172 DNA binding site [nucleotide binding] 491077001173 active site 491077001174 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 491077001175 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 491077001176 FMN binding site [chemical binding]; other site 491077001177 glycerol-3-phosphate dehydrogenase; Provisional; Region: PTZ00345 491077001178 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491077001179 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 491077001180 Coenzyme A binding pocket [chemical binding]; other site 491077001181 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 491077001182 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491077001183 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491077001184 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 491077001185 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 491077001186 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001187 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077001188 Integrase core domain; Region: rve; pfam00665 491077001189 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 491077001190 Isochorismatase family; Region: Isochorismatase; pfam00857 491077001191 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 491077001192 catalytic triad [active] 491077001193 conserved cis-peptide bond; other site 491077001194 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 491077001195 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 491077001196 active site 491077001197 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 491077001198 nudix motif; other site 491077001199 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 491077001200 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 491077001201 dimer interface [polypeptide binding]; other site 491077001202 catalytic triad [active] 491077001203 peroxidatic and resolving cysteines [active] 491077001204 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 491077001205 Phage capsid family; Region: Phage_capsid; pfam05065 491077001206 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 491077001207 oligomerization interface [polypeptide binding]; other site 491077001208 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 491077001209 Holin family; Region: Phage_holin_4; pfam05105 491077001210 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077001211 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 491077001212 catalytic residues [active] 491077001213 catalytic nucleophile [active] 491077001214 hypothetical protein; Provisional; Region: PRK12705 491077001215 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077001216 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 491077001217 catalytic residues [active] 491077001218 catalytic nucleophile [active] 491077001219 potential frameshift: common BLAST hit: gi|116630113|ref|YP_815285.1| site-specific recombinase, DNA invertase Pin related protein 491077001220 Recombinase; Region: Recombinase; pfam07508 491077001221 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 491077001222 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 491077001223 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 491077001224 putative uracil binding site [chemical binding]; other site 491077001225 putative active site [active] 491077001226 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 491077001227 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 491077001228 ligand binding site [chemical binding]; other site 491077001229 flexible hinge region; other site 491077001230 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 491077001231 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 491077001232 metal-binding site [ion binding] 491077001233 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 491077001234 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 491077001235 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 491077001236 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001237 Integrase core domain; Region: rve; pfam00665 491077001238 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 491077001239 Low molecular weight phosphatase family; Region: LMWPc; cd00115 491077001240 active site 491077001241 potential frameshift: common BLAST hit: gi|184155516|ref|YP_001843856.1| helicase 491077001242 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 491077001243 nucleotide binding region [chemical binding]; other site 491077001244 ATP-binding site [chemical binding]; other site 491077001245 Domain of unknown function (DUF389); Region: DUF389; pfam04087 491077001246 potential frameshift: common BLAST hit: gi|148544848|ref|YP_001272218.1| major facilitator transporter 491077001247 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 491077001248 Uncharacterized conserved protein [Function unknown]; Region: COG1479 491077001249 Protein of unknown function DUF262; Region: DUF262; pfam03235 491077001250 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 491077001251 T5orf172 domain; Region: T5orf172; cl17462 491077001252 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 491077001253 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 491077001254 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 491077001255 potential frameshift: common BLAST hit: gi|148544274|ref|YP_001271644.1| integrase catalytic subunit 491077001256 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 491077001257 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 491077001258 Integrase core domain; Region: rve; pfam00665 491077001259 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 491077001260 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077001261 Walker A motif; other site 491077001262 ATP binding site [chemical binding]; other site 491077001263 Walker B motif; other site 491077001264 arginine finger; other site 491077001265 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 491077001266 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 491077001267 non-specific DNA binding site [nucleotide binding]; other site 491077001268 salt bridge; other site 491077001269 sequence-specific DNA binding site [nucleotide binding]; other site 491077001270 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 491077001271 nucleotide binding region [chemical binding]; other site 491077001272 ATP-binding site [chemical binding]; other site 491077001273 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 491077001274 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 491077001275 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 491077001276 DNA binding residues [nucleotide binding] 491077001277 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 491077001278 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 491077001279 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 491077001280 active site 491077001281 DNA binding site [nucleotide binding] 491077001282 catalytic site [active] 491077001283 Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942 491077001284 D5 N terminal like; Region: D5_N; smart00885 491077001285 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 491077001286 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 491077001287 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 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 ATP binding site [chemical binding]; other site 491077001290 putative Mg++ binding site [ion binding]; other site 491077001291 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 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, and...; Region: HNHc; cd00085 491077001293 active site 491077001294 Phage terminase, small subunit; Region: Terminase_4; pfam05119 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; pfam02195 491077001297 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 491077001298 DNA methylase; Region: N6_N4_Mtase; pfam01555 491077001299 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001300 Integrase core domain; Region: rve; pfam00665 491077001301 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 491077001302 Phage portal protein; Region: Phage_portal; pfam04860 491077001303 Phage-related protein [Function unknown]; Region: COG4695 491077001304 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 491077001305 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 491077001306 oligomer interface [polypeptide binding]; other site 491077001307 active site residues [active] 491077001308 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 491077001309 Phage capsid family; Region: Phage_capsid; pfam05065 491077001310 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 491077001311 oligomerization interface [polypeptide binding]; other site 491077001312 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 491077001313 Holin family; Region: Phage_holin_4; pfam05105 491077001314 potential frameshift: common BLAST hit: gi|116630110|ref|YP_815282.1| Lyzozyme M1 (1,4-beta-N-acetylmuramidase) 491077001315 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 491077001316 potential frameshift: common BLAST hit: gi|116630110|ref|YP_815282.1| Lyzozyme M1 (1,4-beta-N-acetylmuramidase) 491077001317 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 491077001318 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 491077001319 Cpl-7 lysozyme C-terminal domain; Region: Cpl-7; smart01095 491077001320 Cpl-7 lysozyme C-terminal domain; Region: Cpl-7; smart01095 491077001321 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077001322 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 491077001323 catalytic residues [active] 491077001324 catalytic nucleophile [active] 491077001325 Recombinase; Region: Recombinase; pfam07508 491077001326 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 491077001327 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077001328 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 491077001329 catalytic residues [active] 491077001330 catalytic nucleophile [active] 491077001331 Recombinase; Region: Recombinase; pfam07508 491077001332 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 491077001333 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 491077001334 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491077001335 Walker A/P-loop; other site 491077001336 ATP binding site [chemical binding]; other site 491077001337 Q-loop/lid; other site 491077001338 ABC transporter signature motif; other site 491077001339 Walker B; other site 491077001340 D-loop; other site 491077001341 H-loop/switch region; other site 491077001342 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 491077001343 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 491077001344 LytTr DNA-binding domain; Region: LytTR; smart00850 491077001345 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 491077001346 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 491077001347 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 491077001348 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 491077001349 ATP binding site [chemical binding]; other site 491077001350 putative Mg++ binding site [ion binding]; other site 491077001351 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 491077001352 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 491077001353 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 491077001354 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 491077001355 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 491077001356 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 491077001357 active site 491077001358 Int/Topo IB signature motif; other site 491077001359 DNA binding site [nucleotide binding] 491077001360 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 491077001361 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 491077001362 HsdM N-terminal domain; Region: HsdM_N; pfam12161 491077001363 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 491077001364 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 491077001365 S-adenosylmethionine binding site [chemical binding]; other site 491077001366 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 491077001367 non-specific DNA binding site [nucleotide binding]; other site 491077001368 salt bridge; other site 491077001369 sequence-specific DNA binding site [nucleotide binding]; other site 491077001370 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 491077001371 ATP binding site [chemical binding]; other site 491077001372 putative Mg++ binding site [ion binding]; other site 491077001373 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 491077001374 nucleotide binding region [chemical binding]; other site 491077001375 ATP-binding site [chemical binding]; other site 491077001376 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 491077001377 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 491077001378 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 491077001379 DNA binding residues [nucleotide binding] 491077001380 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 491077001381 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 491077001382 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 491077001383 active site 491077001384 DNA binding site [nucleotide binding] 491077001385 catalytic site [active] 491077001386 Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942 491077001387 D5 N terminal like; Region: D5_N; smart00885 491077001388 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 491077001389 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 491077001390 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 491077001391 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 491077001392 ATP binding site [chemical binding]; other site 491077001393 putative Mg++ binding site [ion binding]; other site 491077001394 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 491077001395 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 491077001396 active site 491077001397 Phage terminase, small subunit; Region: Terminase_4; cl01525 491077001398 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 491077001399 ParB-like nuclease domain; Region: ParBc; pfam02195 491077001400 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 491077001401 DNA methylase; Region: N6_N4_Mtase; pfam01555 491077001402 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 491077001403 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 491077001404 Phage-related protein [Function unknown]; Region: COG4695 491077001405 Phage portal protein; Region: Phage_portal; pfam04860 491077001406 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 491077001407 oligomer interface [polypeptide binding]; other site 491077001408 active site residues [active] 491077001409 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 491077001410 Phage capsid family; Region: Phage_capsid; pfam05065 491077001411 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 491077001412 oligomerization interface [polypeptide binding]; other site 491077001413 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 491077001414 Holin family; Region: Phage_holin_4; pfam05105 491077001415 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077001416 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 491077001417 catalytic residues [active] 491077001418 catalytic nucleophile [active] 491077001419 Recombinase; Region: Recombinase; pfam07508 491077001420 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 491077001421 Cortexillin I, coiled coil; Region: Cortex-I_coil; pfam09304 491077001422 Recombinase; Region: Recombinase; pfam07508 491077001423 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077001424 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 491077001425 catalytic residues [active] 491077001426 catalytic nucleophile [active] 491077001427 Recombinase; Region: Recombinase; pfam07508 491077001428 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 491077001429 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 491077001430 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 491077001431 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 491077001432 S-adenosylmethionine binding site [chemical binding]; other site 491077001433 putative lipid kinase; Reviewed; Region: PRK13055 491077001434 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 491077001435 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 491077001436 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 491077001437 GatB domain; Region: GatB_Yqey; smart00845 491077001438 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 491077001439 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 491077001440 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 491077001441 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 491077001442 putative dimer interface [polypeptide binding]; other site 491077001443 CamS sex pheromone cAM373 precursor; Region: CamS; pfam07537 491077001444 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 491077001445 putative dimer interface [polypeptide binding]; other site 491077001446 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 491077001447 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 491077001448 nucleotide binding pocket [chemical binding]; other site 491077001449 K-X-D-G motif; other site 491077001450 catalytic site [active] 491077001451 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 491077001452 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 491077001453 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 491077001454 PA/protease or protease-like domain interface [polypeptide binding]; other site 491077001455 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 491077001456 Dimer interface [polypeptide binding]; other site 491077001457 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 491077001458 Part of AAA domain; Region: AAA_19; pfam13245 491077001459 Family description; Region: UvrD_C_2; pfam13538 491077001460 ATP-grasp domain; Region: ATP-grasp_4; cl17255 491077001461 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491077001462 active site 491077001463 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 491077001464 acetoin reductase; Validated; Region: PRK08643 491077001465 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 491077001466 NAD binding site [chemical binding]; other site 491077001467 homotetramer interface [polypeptide binding]; other site 491077001468 homodimer interface [polypeptide binding]; other site 491077001469 active site 491077001470 substrate binding site [chemical binding]; other site 491077001471 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 491077001472 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 491077001473 23S rRNA interface [nucleotide binding]; other site 491077001474 L3 interface [polypeptide binding]; other site 491077001475 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 491077001476 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 491077001477 dimerization interface 3.5A [polypeptide binding]; other site 491077001478 active site 491077001479 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 491077001480 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 491077001481 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 491077001482 Walker A/P-loop; other site 491077001483 ATP binding site [chemical binding]; other site 491077001484 Q-loop/lid; other site 491077001485 ABC transporter signature motif; other site 491077001486 Walker B; other site 491077001487 D-loop; other site 491077001488 H-loop/switch region; other site 491077001489 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 491077001490 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 491077001491 Walker A/P-loop; other site 491077001492 ATP binding site [chemical binding]; other site 491077001493 Q-loop/lid; other site 491077001494 ABC transporter signature motif; other site 491077001495 Walker B; other site 491077001496 D-loop; other site 491077001497 H-loop/switch region; other site 491077001498 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 491077001499 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 491077001500 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 491077001501 alphaNTD homodimer interface [polypeptide binding]; other site 491077001502 alphaNTD - beta interaction site [polypeptide binding]; other site 491077001503 alphaNTD - beta' interaction site [polypeptide binding]; other site 491077001504 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 491077001505 30S ribosomal protein S11; Validated; Region: PRK05309 491077001506 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 491077001507 30S ribosomal protein S13; Region: bact_S13; TIGR03631 491077001508 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 491077001509 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 491077001510 rRNA binding site [nucleotide binding]; other site 491077001511 predicted 30S ribosome binding site; other site 491077001512 adenylate kinase; Reviewed; Region: adk; PRK00279 491077001513 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 491077001514 AMP-binding site [chemical binding]; other site 491077001515 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 491077001516 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 491077001517 SecY translocase; Region: SecY; pfam00344 491077001518 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 491077001519 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 491077001520 23S rRNA binding site [nucleotide binding]; other site 491077001521 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 491077001522 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 491077001523 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 491077001524 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 491077001525 5S rRNA interface [nucleotide binding]; other site 491077001526 L27 interface [polypeptide binding]; other site 491077001527 23S rRNA interface [nucleotide binding]; other site 491077001528 L5 interface [polypeptide binding]; other site 491077001529 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 491077001530 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 491077001531 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 491077001532 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 491077001533 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 491077001534 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 491077001535 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 491077001536 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 491077001537 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 491077001538 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 491077001539 RNA binding site [nucleotide binding]; other site 491077001540 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 491077001541 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 491077001542 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 491077001543 23S rRNA interface [nucleotide binding]; other site 491077001544 putative translocon interaction site; other site 491077001545 signal recognition particle (SRP54) interaction site; other site 491077001546 L23 interface [polypeptide binding]; other site 491077001547 trigger factor interaction site; other site 491077001548 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 491077001549 23S rRNA interface [nucleotide binding]; other site 491077001550 5S rRNA interface [nucleotide binding]; other site 491077001551 putative antibiotic binding site [chemical binding]; other site 491077001552 L25 interface [polypeptide binding]; other site 491077001553 L27 interface [polypeptide binding]; other site 491077001554 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 491077001555 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 491077001556 G-X-X-G motif; other site 491077001557 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 491077001558 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 491077001559 putative translocon binding site; other site 491077001560 protein-rRNA interface [nucleotide binding]; other site 491077001561 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 491077001562 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 491077001563 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 491077001564 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 491077001565 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 491077001566 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 491077001567 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 491077001568 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 491077001569 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001570 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077001571 Integrase core domain; Region: rve; pfam00665 491077001572 Transposase; Region: DEDD_Tnp_IS110; pfam01548 491077001573 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 491077001574 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 491077001575 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 491077001576 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 491077001577 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 491077001578 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 491077001579 elongation factor G; Reviewed; Region: PRK12739 491077001580 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 491077001581 G1 box; other site 491077001582 putative GEF interaction site [polypeptide binding]; other site 491077001583 GTP/Mg2+ binding site [chemical binding]; other site 491077001584 Switch I region; other site 491077001585 G2 box; other site 491077001586 G3 box; other site 491077001587 Switch II region; other site 491077001588 G4 box; other site 491077001589 G5 box; other site 491077001590 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 491077001591 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 491077001592 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 491077001593 30S ribosomal protein S7; Validated; Region: PRK05302 491077001594 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 491077001595 S17 interaction site [polypeptide binding]; other site 491077001596 S8 interaction site; other site 491077001597 16S rRNA interaction site [nucleotide binding]; other site 491077001598 streptomycin interaction site [chemical binding]; other site 491077001599 23S rRNA interaction site [nucleotide binding]; other site 491077001600 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 491077001601 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 491077001602 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 491077001603 Predicted membrane protein [Function unknown]; Region: COG3371 491077001604 Protein of unknown function (DUF998); Region: DUF998; pfam06197 491077001605 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 491077001606 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 491077001607 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 491077001608 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 491077001609 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 491077001610 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 491077001611 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 491077001612 G-loop; other site 491077001613 DNA binding site [nucleotide binding] 491077001614 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 491077001615 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 491077001616 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 491077001617 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 491077001618 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 491077001619 RPB1 interaction site [polypeptide binding]; other site 491077001620 RPB12 interaction site [polypeptide binding]; other site 491077001621 RPB10 interaction site [polypeptide binding]; other site 491077001622 RPB11 interaction site [polypeptide binding]; other site 491077001623 RPB3 interaction site [polypeptide binding]; other site 491077001624 RPB12 interaction site [polypeptide binding]; other site 491077001625 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491077001626 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491077001627 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 491077001628 Clp amino terminal domain; Region: Clp_N; pfam02861 491077001629 Clp amino terminal domain; Region: Clp_N; pfam02861 491077001630 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077001631 Walker A motif; other site 491077001632 ATP binding site [chemical binding]; other site 491077001633 Walker B motif; other site 491077001634 arginine finger; other site 491077001635 UvrB/uvrC motif; Region: UVR; pfam02151 491077001636 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077001637 Walker A motif; other site 491077001638 ATP binding site [chemical binding]; other site 491077001639 Walker B motif; other site 491077001640 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 491077001641 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 491077001642 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 491077001643 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 491077001644 NAD binding site [chemical binding]; other site 491077001645 substrate binding site [chemical binding]; other site 491077001646 catalytic Zn binding site [ion binding]; other site 491077001647 tetramer interface [polypeptide binding]; other site 491077001648 structural Zn binding site [ion binding]; other site 491077001649 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 491077001650 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077001651 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077001652 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001653 Integrase core domain; Region: rve; pfam00665 491077001654 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077001655 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077001656 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001657 Integrase core domain; Region: rve; pfam00665 491077001658 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 491077001659 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 2.7.1; Region: dNK; cd01673 491077001660 Substrate-binding site [chemical binding]; other site 491077001661 Substrate specificity [chemical binding]; other site 491077001662 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 491077001663 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 491077001664 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 491077001665 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 491077001666 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 491077001667 active site 491077001668 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 491077001669 Uncharacterized conserved protein [Function unknown]; Region: COG2966 491077001670 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 491077001671 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 491077001672 DNA-binding site [nucleotide binding]; DNA binding site 491077001673 RNA-binding motif; other site 491077001674 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 491077001675 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 491077001676 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 491077001677 FeoA domain; Region: FeoA; pfam04023 491077001678 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 491077001679 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 491077001680 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 491077001681 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 491077001682 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 491077001683 Ligand Binding Site [chemical binding]; other site 491077001684 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491077001685 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491077001686 Walker A/P-loop; other site 491077001687 ATP binding site [chemical binding]; other site 491077001688 Q-loop/lid; other site 491077001689 ABC transporter signature motif; other site 491077001690 Walker B; other site 491077001691 D-loop; other site 491077001692 H-loop/switch region; other site 491077001693 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491077001694 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 491077001695 substrate binding pocket [chemical binding]; other site 491077001696 membrane-bound complex binding site; other site 491077001697 hinge residues; other site 491077001698 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491077001699 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491077001700 dimer interface [polypeptide binding]; other site 491077001701 conserved gate region; other site 491077001702 putative PBP binding loops; other site 491077001703 ABC-ATPase subunit interface; other site 491077001704 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491077001705 dimer interface [polypeptide binding]; other site 491077001706 conserved gate region; other site 491077001707 putative PBP binding loops; other site 491077001708 ABC-ATPase subunit interface; other site 491077001709 CAAX protease self-immunity; Region: Abi; pfam02517 491077001710 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 491077001711 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 491077001712 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 491077001713 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 491077001714 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 491077001715 DNA binding residues [nucleotide binding] 491077001716 putative dimer interface [polypeptide binding]; other site 491077001717 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 491077001718 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 491077001719 putative substrate translocation pore; other site 491077001720 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 491077001721 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001722 Integrase core domain; Region: rve; pfam00665 491077001723 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 491077001724 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 491077001725 active site 491077001726 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077001727 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077001728 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001729 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077001730 Integrase core domain; Region: rve; pfam00665 491077001731 Predicted integral membrane protein [Function unknown]; Region: COG0392 491077001732 Uncharacterized conserved protein [Function unknown]; Region: COG2898 491077001733 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 491077001734 DJ-1 family protein; Region: not_thiJ; TIGR01383 491077001735 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 491077001736 conserved cys residue [active] 491077001737 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 491077001738 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 491077001739 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 491077001740 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491077001741 putative substrate translocation pore; other site 491077001742 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 491077001743 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 491077001744 Fe-S cluster binding site [ion binding]; other site 491077001745 active site 491077001746 Uncharacterized conserved protein [Function unknown]; Region: COG2966 491077001747 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 491077001748 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 491077001749 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491077001750 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491077001751 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 491077001752 dimerization interface [polypeptide binding]; other site 491077001753 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491077001754 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 491077001755 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; pfam03802 491077001756 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 491077001757 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 491077001758 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 491077001759 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 491077001760 citrate lyase subunit gamma; Provisional; Region: PRK13253 491077001761 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 491077001762 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 491077001763 active site 491077001764 nucleotide binding site [chemical binding]; other site 491077001765 HIGH motif; other site 491077001766 KMSKS motif; other site 491077001767 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 491077001768 Malic enzyme, N-terminal domain; Region: malic; pfam00390 491077001769 Malic enzyme, NAD binding domain; Region: Malic_M; smart00919 491077001770 NAD(P) binding pocket [chemical binding]; other site 491077001771 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 491077001772 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 491077001773 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 491077001774 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 491077001775 transmembrane helices; other site 491077001776 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 491077001777 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 491077001778 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491077001779 NAD binding site [chemical binding]; other site 491077001780 dimer interface [polypeptide binding]; other site 491077001781 substrate binding site [chemical binding]; other site 491077001782 L-aspartate oxidase; Provisional; Region: PRK06175 491077001783 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 491077001784 fumarate hydratase; Reviewed; Region: fumC; PRK00485 491077001785 Class II fumarases; Region: Fumarase_classII; cd01362 491077001786 active site 491077001787 tetramer interface [polypeptide binding]; other site 491077001788 malate dehydrogenase; Provisional; Region: PRK13529 491077001789 Malic enzyme, N-terminal domain; Region: malic; pfam00390 491077001790 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 491077001791 NAD(P) binding site [chemical binding]; other site 491077001792 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491077001793 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491077001794 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 491077001795 putative dimerization interface [polypeptide binding]; other site 491077001796 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 491077001797 active site 491077001798 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 491077001799 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_2; TIGR02822 491077001800 putative NAD(P) binding site [chemical binding]; other site 491077001801 putative substrate binding site [chemical binding]; other site 491077001802 catalytic Zn binding site [ion binding]; other site 491077001803 structural Zn binding site [ion binding]; other site 491077001804 potential frameshift: common BLAST hit: gi|148544748|ref|YP_001272118.1| plasmid pRiA4b ORF-3 family protein 491077001805 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 491077001806 potential frameshift: common BLAST hit: gi|148544748|ref|YP_001272118.1| plasmid pRiA4b ORF-3 family protein 491077001807 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077001808 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077001809 Probable transposase; Region: OrfB_IS605; pfam01385 491077001810 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 491077001811 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 491077001812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 491077001813 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 491077001814 active site 491077001815 catalytic residues [active] 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 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077001818 putative active site [active] 491077001819 putative NTP binding site [chemical binding]; other site 491077001820 putative nucleic acid binding site [nucleotide binding]; other site 491077001821 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077001822 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 491077001823 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 491077001824 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 491077001825 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 491077001826 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 491077001827 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077001828 putative active site [active] 491077001829 putative NTP binding site [chemical binding]; other site 491077001830 putative nucleic acid binding site [nucleotide binding]; other site 491077001831 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077001832 Alpha amylase catalytic domain found in sucrose phosphorylase (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase; cd11355 491077001833 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 491077001834 active site 491077001835 homodimer interface [polypeptide binding]; other site 491077001836 catalytic site [active] 491077001837 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 491077001838 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491077001839 putative substrate translocation pore; other site 491077001840 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 491077001841 hypothetical protein; Provisional; Region: PRK07205 491077001842 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 491077001843 active site 491077001844 metal binding site [ion binding]; metal-binding site 491077001845 potential frameshift: common BLAST hit: gi|148544757|ref|YP_001272127.1| C4-dicarboxylate anaerobic carrier 491077001846 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 491077001847 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 491077001848 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077001849 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077001850 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001851 Integrase core domain; Region: rve; pfam00665 491077001852 Predicted membrane protein [Function unknown]; Region: COG1288 491077001853 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 491077001854 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491077001855 Q-loop/lid; other site 491077001856 ABC transporter signature motif; other site 491077001857 Walker B; other site 491077001858 D-loop; other site 491077001859 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 491077001860 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491077001861 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 491077001862 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 491077001863 Predicted membrane protein [Function unknown]; Region: COG2855 491077001864 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491077001865 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 491077001866 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 491077001867 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 491077001868 dimer interface [polypeptide binding]; other site 491077001869 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077001870 catalytic residue [active] 491077001871 Ferrochelatase; Region: Ferrochelatase; pfam00762 491077001872 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 491077001873 C-terminal domain interface [polypeptide binding]; other site 491077001874 active site 491077001875 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 491077001876 active site 491077001877 N-terminal domain interface [polypeptide binding]; other site 491077001878 manganese transport protein MntH; Reviewed; Region: PRK00701 491077001879 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 491077001880 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 491077001881 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 491077001882 TrkA-N domain; Region: TrkA_N; pfam02254 491077001883 TrkA-C domain; Region: TrkA_C; pfam02080 491077001884 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 491077001885 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 491077001886 myosin-cross-reactive antigen; Provisional; Region: PRK13977 491077001887 Transposase; Region: DEDD_Tnp_IS110; pfam01548 491077001888 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 491077001889 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 491077001890 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 491077001891 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077001892 putative active site [active] 491077001893 putative NTP binding site [chemical binding]; other site 491077001894 putative nucleic acid binding site [nucleotide binding]; other site 491077001895 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077001896 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 as...; Region: NfsA_FRP; cd02146 491077001897 dimer interface [polypeptide binding]; other site 491077001898 FMN binding site [chemical binding]; other site 491077001899 NADPH bind site [chemical binding]; other site 491077001900 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 491077001901 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 491077001902 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 491077001903 DXD motif; other site 491077001904 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 491077001905 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077001906 putative active site [active] 491077001907 putative NTP binding site [chemical binding]; other site 491077001908 putative nucleic acid binding site [nucleotide binding]; other site 491077001909 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077001910 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 491077001911 PhoU domain; Region: PhoU; pfam01895 491077001912 PhoU domain; Region: PhoU; pfam01895 491077001913 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 491077001914 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 491077001915 Walker A/P-loop; other site 491077001916 ATP binding site [chemical binding]; other site 491077001917 Q-loop/lid; other site 491077001918 ABC transporter signature motif; other site 491077001919 Walker B; other site 491077001920 D-loop; other site 491077001921 H-loop/switch region; other site 491077001922 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 491077001923 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491077001924 dimer interface [polypeptide binding]; other site 491077001925 conserved gate region; other site 491077001926 putative PBP binding loops; other site 491077001927 ABC-ATPase subunit interface; other site 491077001928 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 491077001929 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491077001930 dimer interface [polypeptide binding]; other site 491077001931 conserved gate region; other site 491077001932 putative PBP binding loops; other site 491077001933 ABC-ATPase subunit interface; other site 491077001934 PBP superfamily domain; Region: PBP_like_2; cl17296 491077001935 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 491077001936 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491077001937 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 491077001938 DNA binding site [nucleotide binding] 491077001939 potential frameshift: common BLAST hit: gi|184199645|ref|YP_001856232.1| IS30 family transposase 491077001940 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001941 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001942 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 491077001943 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077001944 putative active site [active] 491077001945 putative nucleic acid binding site [nucleotide binding]; other site 491077001946 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077001947 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001948 Integrase core domain; Region: rve; pfam00665 491077001949 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 491077001950 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 491077001951 potential frameshift: common BLAST hit: gi|148543586|ref|YP_001270956.1| transposase, IS4 family protein 491077001952 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 491077001953 potential frameshift: common BLAST hit: gi|148543586|ref|YP_001270956.1| transposase, IS4 family protein 491077001954 potential frameshift: common BLAST hit: gi|148543586|ref|YP_001270956.1| transposase, IS4 family protein 491077001955 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 491077001956 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 491077001957 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 491077001958 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491077001959 Coenzyme A binding pocket [chemical binding]; other site 491077001960 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 491077001961 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 491077001962 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 491077001963 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 491077001964 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 491077001965 Low molecular weight phosphatase family; Region: LMWPc; cd00115 491077001966 active site 491077001967 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 491077001968 Helix-turn-helix domain; Region: HTH_28; pfam13518 491077001969 putative transposase OrfB; Reviewed; Region: PHA02517 491077001970 HTH-like domain; Region: HTH_21; pfam13276 491077001971 Integrase core domain; Region: rve; pfam00665 491077001972 Integrase core domain; Region: rve_3; pfam13683 491077001973 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077001974 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077001975 elongation factor P; Validated; Region: PRK00529 491077001976 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 491077001977 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 491077001978 RNA binding site [nucleotide binding]; other site 491077001979 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 491077001980 RNA binding site [nucleotide binding]; other site 491077001981 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 491077001982 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 491077001983 Transposase IS200 like; Region: Y1_Tnp; cl00848 491077001984 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001985 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077001986 Integrase core domain; Region: rve; pfam00665 491077001987 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 491077001988 S-ribosylhomocysteinase; Provisional; Region: PRK02260 491077001989 T-box leader; HMPREF0538_nc20018 491077001990 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 491077001991 active site 491077001992 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077001993 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077001994 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 491077001995 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077001996 Integrase core domain; Region: rve; pfam00665 491077001997 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 491077001998 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 491077001999 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077002000 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077002001 Probable transposase; Region: OrfB_IS605; pfam01385 491077002002 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 491077002003 Piccolo Zn-finger; Region: zf-piccolo; pfam05715 491077002004 Transposase IS200 like; Region: Y1_Tnp; pfam01797 491077002005 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 491077002006 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 491077002007 potential frameshift: common BLAST hit: gi|148544807|ref|YP_001272177.1| GCN5-related N-acetyltransferase 491077002008 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077002009 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077002010 Probable transposase; Region: OrfB_IS605; pfam01385 491077002011 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 491077002012 Transposase IS200 like; Region: Y1_Tnp; pfam01797 491077002013 hypothetical protein; Provisional; Region: PRK13690 491077002014 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 491077002015 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 491077002016 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 491077002017 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 491077002018 putative substrate translocation pore; other site 491077002019 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 491077002020 Int/Topo IB signature motif; other site 491077002021 Domain of unknown function (DUF3173); Region: DUF3173; pfam11372 491077002022 Phage associated DNA primase [General function prediction only]; Region: COG3378 491077002023 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077002024 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 491077002025 catalytic residues [active] 491077002026 catalytic nucleophile [active] 491077002027 Presynaptic Site I dimer interface [polypeptide binding]; other site 491077002028 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 491077002029 Synaptic Flat tetramer interface [polypeptide binding]; other site 491077002030 Synaptic Site I dimer interface [polypeptide binding]; other site 491077002031 DNA binding site [nucleotide binding] 491077002032 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077002033 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002034 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077002035 Integrase core domain; Region: rve; pfam00665 491077002036 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002037 Integrase core domain; Region: rve; pfam00665 491077002038 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 491077002039 Glycosyl hydrolase family 70; Region: Glyco_hydro_70; pfam02324 491077002040 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 491077002041 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 491077002042 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 491077002043 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077002044 putative active site [active] 491077002045 putative NTP binding site [chemical binding]; other site 491077002046 putative nucleic acid binding site [nucleotide binding]; other site 491077002047 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077002048 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 491077002049 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 491077002050 Int/Topo IB signature motif; other site 491077002051 Domain of unknown function (DUF3173); Region: DUF3173; pfam11372 491077002052 Rib/alpha-like repeat; Region: Rib; cl07159 491077002053 Rib/alpha-like repeat; Region: Rib; cl07159 491077002054 Rib/alpha-like repeat; Region: Rib; cl07159 491077002055 Rib/alpha-like repeat; Region: Rib; pfam08428 491077002056 Rib/alpha-like repeat; Region: Rib; cl07159 491077002057 T-complex protein 10 C-terminus; Region: Tcp10_C; pfam07202 491077002058 unresolvable tandem repeat 491077002059 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 491077002060 Rib/alpha-like repeat; Region: Rib; pfam08428 491077002061 Rib/alpha-like repeat; Region: Rib; pfam08428 491077002062 Rib/alpha-like repeat; Region: Rib; pfam08428 491077002063 potential frameshift: common BLAST hit: gi|315037981|ref|YP_004031549.1| transposase IS66 491077002064 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 491077002065 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 491077002066 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002067 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077002068 Integrase core domain; Region: rve; pfam00665 491077002069 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 491077002070 nickel responsive regulator; Provisional; Region: PRK04460 491077002071 GMP synthase; Reviewed; Region: guaA; PRK00074 491077002072 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 491077002073 AMP/PPi binding site [chemical binding]; other site 491077002074 candidate oxyanion hole; other site 491077002075 catalytic triad [active] 491077002076 potential glutamine specificity residues [chemical binding]; other site 491077002077 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 491077002078 ATP Binding subdomain [chemical binding]; other site 491077002079 Ligand Binding sites [chemical binding]; other site 491077002080 Dimerization subdomain; other site 491077002081 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 491077002082 AAA domain; Region: AAA_14; pfam13173 491077002083 pantothenate kinase; Provisional; Region: PRK05439 491077002084 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...; Region: PanK; cd02025 491077002085 ATP-binding site [chemical binding]; other site 491077002086 CoA-binding site [chemical binding]; other site 491077002087 Mg2+-binding site [ion binding]; other site 491077002088 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 491077002089 Sulfatase; Region: Sulfatase; pfam00884 491077002090 EamA-like transporter family; Region: EamA; pfam00892 491077002091 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 491077002092 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 491077002093 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 491077002094 Part of AAA domain; Region: AAA_19; pfam13245 491077002095 Family description; Region: UvrD_C_2; pfam13538 491077002096 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 491077002097 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 491077002098 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 491077002099 catalytic core [active] 491077002100 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 491077002101 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 491077002102 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 491077002103 HflX GTPase family; Region: HflX; cd01878 491077002104 G1 box; other site 491077002105 GTP/Mg2+ binding site [chemical binding]; other site 491077002106 Switch I region; other site 491077002107 G2 box; other site 491077002108 G3 box; other site 491077002109 Switch II region; other site 491077002110 G4 box; other site 491077002111 G5 box; other site 491077002112 Predicted membrane protein [Function unknown]; Region: COG2261 491077002113 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 491077002114 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 491077002115 homodimer interface [polypeptide binding]; other site 491077002116 ligand binding site [chemical binding]; other site 491077002117 NAD binding site [chemical binding]; other site 491077002118 catalytic site [active] 491077002119 Predicted membrane protein [Function unknown]; Region: COG1511 491077002120 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 491077002121 Predicted membrane protein [Function unknown]; Region: COG1511 491077002122 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 491077002123 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491077002124 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491077002125 PspC domain; Region: PspC; pfam04024 491077002126 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 491077002127 metal binding site 2 [ion binding]; metal-binding site 491077002128 putative DNA binding helix; other site 491077002129 metal binding site 1 [ion binding]; metal-binding site 491077002130 dimer interface [polypeptide binding]; other site 491077002131 structural Zn2+ binding site [ion binding]; other site 491077002132 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 491077002133 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 491077002134 active site 491077002135 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 491077002136 active site 491077002137 Ap4A binding cleft/pocket [chemical binding]; other site 491077002138 P4 phosphate binding site; other site 491077002139 nudix motif; other site 491077002140 putative P2/P3 phosphate binding site [ion binding]; other site 491077002141 amino acid transporter; Region: 2A0306; TIGR00909 491077002142 cation transport protein; Region: 2A0119; TIGR00898 491077002143 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 491077002144 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077002145 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077002146 Probable transposase; Region: OrfB_IS605; pfam01385 491077002147 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 491077002148 Transposase IS200 like; Region: Y1_Tnp; pfam01797 491077002149 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 491077002150 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 491077002151 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 491077002152 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491077002153 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491077002154 dimer interface [polypeptide binding]; other site 491077002155 conserved gate region; other site 491077002156 putative PBP binding loops; other site 491077002157 ABC-ATPase subunit interface; other site 491077002158 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 491077002159 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491077002160 dimer interface [polypeptide binding]; other site 491077002161 conserved gate region; other site 491077002162 putative PBP binding loops; other site 491077002163 ABC-ATPase subunit interface; other site 491077002164 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 491077002165 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 491077002166 Walker A/P-loop; other site 491077002167 ATP binding site [chemical binding]; other site 491077002168 Q-loop/lid; other site 491077002169 ABC transporter signature motif; other site 491077002170 Walker B; other site 491077002171 D-loop; other site 491077002172 H-loop/switch region; other site 491077002173 TOBE domain; Region: TOBE_2; pfam08402 491077002174 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077002175 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077002176 Probable transposase; Region: OrfB_IS605; pfam01385 491077002177 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 491077002178 Transposase IS200 like; Region: Y1_Tnp; pfam01797 491077002179 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 491077002180 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; smart00940 491077002181 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 491077002182 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 491077002183 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 491077002184 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 491077002185 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 491077002186 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 491077002187 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 491077002188 motif II; other site 491077002189 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 491077002190 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 491077002191 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 491077002192 dimerization interface [polypeptide binding]; other site 491077002193 DPS ferroxidase diiron center [ion binding]; other site 491077002194 ion pore; other site 491077002195 potential frameshift: common BLAST hit: gi|148544858|ref|YP_001272228.1| amino acid permease-associated region 491077002196 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 491077002197 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 491077002198 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 491077002199 motif II; other site 491077002200 Double zinc ribbon; Region: DZR; pfam12773 491077002201 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 491077002202 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491077002203 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. These...; Region: nuc_hydro_CaPnhB; cd02650 491077002204 active site 491077002205 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077002206 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077002207 Probable transposase; Region: OrfB_IS605; pfam01385 491077002208 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 491077002209 Transposase IS200 like; Region: Y1_Tnp; pfam01797 491077002210 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077002211 NAD(P) binding site [chemical binding]; other site 491077002212 active site 491077002213 hypothetical protein; Provisional; Region: PRK10621 491077002214 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 491077002215 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 491077002216 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 491077002217 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 491077002218 Walker A/P-loop; other site 491077002219 ATP binding site [chemical binding]; other site 491077002220 Q-loop/lid; other site 491077002221 ABC transporter signature motif; other site 491077002222 Walker B; other site 491077002223 D-loop; other site 491077002224 H-loop/switch region; other site 491077002225 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 491077002226 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 491077002227 Walker A/P-loop; other site 491077002228 ATP binding site [chemical binding]; other site 491077002229 Q-loop/lid; other site 491077002230 ABC transporter signature motif; other site 491077002231 Walker B; other site 491077002232 D-loop; other site 491077002233 H-loop/switch region; other site 491077002234 Cobalt transport protein; Region: CbiQ; cl00463 491077002235 Tic20-like protein; Region: Tic20; pfam09685 491077002236 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 491077002237 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 491077002238 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 491077002239 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 491077002240 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491077002241 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 491077002242 non-specific DNA binding site [nucleotide binding]; other site 491077002243 salt bridge; other site 491077002244 sequence-specific DNA binding site [nucleotide binding]; other site 491077002245 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 491077002246 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 491077002247 NAD(P) binding site [chemical binding]; other site 491077002248 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 491077002249 PTS system sugar-specific permease component; Region: EIIC-GAT; pfam03611 491077002250 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 491077002251 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 491077002252 putative substrate translocation pore; other site 491077002253 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491077002254 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 491077002255 non-specific DNA binding site [nucleotide binding]; other site 491077002256 salt bridge; other site 491077002257 sequence-specific DNA binding site [nucleotide binding]; other site 491077002258 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 491077002259 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491077002260 Walker A/P-loop; other site 491077002261 ATP binding site [chemical binding]; other site 491077002262 Q-loop/lid; other site 491077002263 ABC transporter signature motif; other site 491077002264 Walker B; other site 491077002265 D-loop; other site 491077002266 H-loop/switch region; other site 491077002267 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 491077002268 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 491077002269 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 491077002270 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002271 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077002272 Integrase core domain; Region: rve; pfam00665 491077002273 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 491077002274 Ligand Binding Site [chemical binding]; other site 491077002275 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 491077002276 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 491077002277 G1 box; other site 491077002278 putative GEF interaction site [polypeptide binding]; other site 491077002279 GTP/Mg2+ binding site [chemical binding]; other site 491077002280 Switch I region; other site 491077002281 G2 box; other site 491077002282 G3 box; other site 491077002283 Switch II region; other site 491077002284 G4 box; other site 491077002285 G5 box; other site 491077002286 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 491077002287 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 491077002288 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...; Region: Tet_C; cd03711 491077002289 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 491077002290 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 491077002291 nucleotide binding site [chemical binding]; other site 491077002292 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 491077002293 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002294 Integrase core domain; Region: rve; pfam00665 491077002295 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 491077002296 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 491077002297 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 491077002298 nucleophilic elbow; other site 491077002299 catalytic triad; other site 491077002300 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 491077002301 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 491077002302 putative phosphoketolase; Provisional; Region: PRK05261 491077002303 XFP N-terminal domain; Region: XFP_N; pfam09364 491077002304 XFP C-terminal domain; Region: XFP_C; pfam09363 491077002305 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491077002306 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 491077002307 DNA-binding site [nucleotide binding]; DNA binding site 491077002308 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 491077002309 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002310 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077002311 Integrase core domain; Region: rve; pfam00665 491077002312 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 491077002313 putative deacylase active site [active] 491077002314 Peptidase family C69; Region: Peptidase_C69; pfam03577 491077002315 ribonucleoside-triphosphate reductase, adenosylcobalamin-dependent; Region: RTPR; TIGR02505 491077002316 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 491077002317 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 491077002318 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491077002319 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 491077002320 Walker A/P-loop; other site 491077002321 ATP binding site [chemical binding]; other site 491077002322 Q-loop/lid; other site 491077002323 ABC transporter signature motif; other site 491077002324 Walker B; other site 491077002325 D-loop; other site 491077002326 H-loop/switch region; other site 491077002327 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 491077002328 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491077002329 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491077002330 Walker A/P-loop; other site 491077002331 ATP binding site [chemical binding]; other site 491077002332 Q-loop/lid; other site 491077002333 ABC transporter signature motif; other site 491077002334 Walker B; other site 491077002335 D-loop; other site 491077002336 H-loop/switch region; other site 491077002337 MarR family; Region: MarR_2; cl17246 491077002338 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 491077002339 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 491077002340 homodimer interface [polypeptide binding]; other site 491077002341 ligand binding site [chemical binding]; other site 491077002342 NAD binding site [chemical binding]; other site 491077002343 catalytic site [active] 491077002344 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002345 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077002346 Integrase core domain; Region: rve; pfam00665 491077002347 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 491077002348 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 491077002349 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077002350 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077002351 Probable transposase; Region: OrfB_IS605; pfam01385 491077002352 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 491077002353 Transposase IS200 like; Region: Y1_Tnp; pfam01797 491077002354 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 491077002355 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 491077002356 active site pocket [active] 491077002357 putative dimer interface [polypeptide binding]; other site 491077002358 putative cataytic base [active] 491077002359 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 491077002360 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 491077002361 active site 491077002362 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 491077002363 catalytic core [active] 491077002364 Cobalamin-5-phosphate synthase [Coenzyme metabolism]; Region: CobS; COG0368 491077002365 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 491077002366 homotrimer interface [polypeptide binding]; other site 491077002367 Walker A motif; other site 491077002368 GTP binding site [chemical binding]; other site 491077002369 Walker B motif; other site 491077002370 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 491077002371 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 491077002372 inhibitor-cofactor binding pocket; inhibition site 491077002373 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077002374 catalytic residue [active] 491077002375 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 491077002376 dimer interface [polypeptide binding]; other site 491077002377 active site 491077002378 Schiff base residues; other site 491077002379 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 491077002380 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 491077002381 domain interfaces; other site 491077002382 active site 491077002383 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 491077002384 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 491077002385 tRNA; other site 491077002386 putative tRNA binding site [nucleotide binding]; other site 491077002387 putative NADP binding site [chemical binding]; other site 491077002388 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 491077002389 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 491077002390 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 491077002391 cobyric acid synthase; Provisional; Region: PRK00784 491077002392 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 491077002393 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 491077002394 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 491077002395 catalytic triad [active] 491077002396 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13638 491077002397 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 491077002398 Walker A/P-loop; other site 491077002399 ATP binding site [chemical binding]; other site 491077002400 Q-loop/lid; other site 491077002401 ABC transporter signature motif; other site 491077002402 Walker B; other site 491077002403 D-loop; other site 491077002404 H-loop/switch region; other site 491077002405 Cobalt transport protein; Region: CbiQ; cl00463 491077002406 cobalt transport protein CbiN; Provisional; Region: PRK02898 491077002407 cobalt transport protein CbiM; Validated; Region: PRK08319 491077002408 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 491077002409 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 491077002410 active site 491077002411 SAM binding site [chemical binding]; other site 491077002412 homodimer interface [polypeptide binding]; other site 491077002413 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 491077002414 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 491077002415 active site 491077002416 C-terminal domain interface [polypeptide binding]; other site 491077002417 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 491077002418 active site 491077002419 N-terminal domain interface [polypeptide binding]; other site 491077002420 bifunctional uroporphyrinogen-III methyltransferase/uroporphyrinogen-III synthase; Reviewed; Region: PRK07168 491077002421 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 491077002422 active site 491077002423 SAM binding site [chemical binding]; other site 491077002424 homodimer interface [polypeptide binding]; other site 491077002425 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 491077002426 active site 491077002427 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 491077002428 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 491077002429 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 491077002430 active site 491077002431 SAM binding site [chemical binding]; other site 491077002432 homodimer interface [polypeptide binding]; other site 491077002433 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 491077002434 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 491077002435 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 491077002436 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 491077002437 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 491077002438 active site 491077002439 SAM binding site [chemical binding]; other site 491077002440 homodimer interface [polypeptide binding]; other site 491077002441 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 491077002442 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 491077002443 S-adenosylmethionine binding site [chemical binding]; other site 491077002444 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 491077002445 active site 491077002446 putative homodimer interface [polypeptide binding]; other site 491077002447 SAM binding site [chemical binding]; other site 491077002448 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 491077002449 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; PRK08286 491077002450 Precorrin-8X methylmutase; Region: CbiC; pfam02570 491077002451 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 491077002452 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 491077002453 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 491077002454 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 491077002455 catalytic triad [active] 491077002456 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 491077002457 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 491077002458 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077002459 homodimer interface [polypeptide binding]; other site 491077002460 catalytic residue [active] 491077002461 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 491077002462 Predicted flavoprotein [General function prediction only]; Region: COG0431 491077002463 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491077002464 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491077002465 Coenzyme A binding pocket [chemical binding]; other site 491077002466 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 491077002467 Ethanolamine utilisation - propanediol utilisation; Region: PduV-EutP; pfam10662 491077002468 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 491077002469 G3 box; other site 491077002470 Switch II region; other site 491077002471 GTP/Mg2+ binding site [chemical binding]; other site 491077002472 G4 box; other site 491077002473 G5 box; other site 491077002474 Cadmium resistance transporter; Region: Cad; pfam03596 491077002475 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 491077002476 catalytic core [active] 491077002477 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 491077002478 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 491077002479 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 491077002480 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 491077002481 putative hexamer interface [polypeptide binding]; other site 491077002482 putative hexagonal pore; other site 491077002483 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 491077002484 propionate/acetate kinase; Provisional; Region: PRK12379 491077002485 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 491077002486 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 491077002487 putative active site [active] 491077002488 metal binding site [ion binding]; metal-binding site 491077002489 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 491077002490 putative catalytic cysteine [active] 491077002491 Domain of unknown function (DUF336); Region: DUF336; pfam03928 491077002492 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 491077002493 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 491077002494 Hexamer/Pentamer interface [polypeptide binding]; other site 491077002495 central pore; other site 491077002496 putative propanediol utilization protein PduM; Provisional; Region: PRK15428 491077002497 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 491077002498 Propanediol utilisation protein PduL; Region: PduL; pfam06130 491077002499 Propanediol utilisation protein PduL; Region: PduL; pfam06130 491077002500 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 491077002501 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 491077002502 Hexamer interface [polypeptide binding]; other site 491077002503 Hexagonal pore residue; other site 491077002504 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 491077002505 1,2-propanediol utilization protein K (PduK), Bacterial Micro-Compartment (BMC) domain repeat 1l; Region: BMC_PduK; cd07056 491077002506 putative hexamer interface [polypeptide binding]; other site 491077002507 putative hexagonal pore; other site 491077002508 Dehydratase medium subunit; Region: Dehydratase_MU; pfam02288 491077002509 Cell division protein FtsA; Region: FtsA; cl17206 491077002510 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 491077002511 Dehydratase small subunit; Region: Dehydratase_SU; pfam02287 491077002512 propanediol dehydratase medium subunit; Provisional; Region: pduD; PRK15042 491077002513 Dehydratase large subunit; Region: Dehydratase_LU; pfam02286 491077002514 Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduC; COG4909 491077002515 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 491077002516 alpha-beta subunit interface [polypeptide binding]; other site 491077002517 alpha-gamma subunit interface [polypeptide binding]; other site 491077002518 active site 491077002519 substrate and K+ binding site; other site 491077002520 K+ binding site [ion binding]; other site 491077002521 cobalamin binding site [chemical binding]; other site 491077002522 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 491077002523 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutL; COG4816 491077002524 Hexamer interface [polypeptide binding]; other site 491077002525 Hexagonal pore residue; other site 491077002526 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 491077002527 putative hexamer interface [polypeptide binding]; other site 491077002528 putative hexagonal pore; other site 491077002529 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 491077002530 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 491077002531 Hexamer interface [polypeptide binding]; other site 491077002532 Hexagonal pore residue; other site 491077002533 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491077002534 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491077002535 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 491077002536 Cell division protein FtsA; Region: FtsA; cl17206 491077002537 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 491077002538 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 491077002539 amphipathic channel; other site 491077002540 Asn-Pro-Ala signature motifs; other site 491077002541 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 491077002542 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 491077002543 Domain of unknown function DUF20; Region: UPF0118; pfam01594 491077002544 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 491077002545 B3/4 domain; Region: B3_4; pfam03483 491077002546 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 491077002547 MarR family; Region: MarR; pfam01047 491077002548 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 491077002549 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077002550 active site 491077002551 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491077002552 Walker A/P-loop; other site 491077002553 ATP binding site [chemical binding]; other site 491077002554 Q-loop/lid; other site 491077002555 ABC transporter signature motif; other site 491077002556 Walker B; other site 491077002557 D-loop; other site 491077002558 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 491077002559 Domain of unknown function DUF21; Region: DUF21; pfam01595 491077002560 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 491077002561 Transporter associated domain; Region: CorC_HlyC; smart01091 491077002562 NrdI Flavodoxin like; Region: Flavodoxin_NdrI; cl17293 491077002563 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 491077002564 dimer interface [polypeptide binding]; other site 491077002565 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 491077002566 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 491077002567 putative substrate translocation pore; other site 491077002568 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 491077002569 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 491077002570 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 491077002571 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 491077002572 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 491077002573 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 491077002574 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 491077002575 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 491077002576 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 family...; Region: PTS_IIA_glc; cd00210 491077002577 HPr interaction site; other site 491077002578 glycerol kinase (GK) interaction site [polypeptide binding]; other site 491077002579 active site 491077002580 phosphorylation site [posttranslational modification] 491077002581 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077002582 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077002583 Probable transposase; Region: OrfB_IS605; pfam01385 491077002584 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 491077002585 Transposase IS200 like; Region: Y1_Tnp; pfam01797 491077002586 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 491077002587 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 491077002588 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 491077002589 Ligand Binding Site [chemical binding]; other site 491077002590 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491077002591 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 491077002592 putative DNA binding site [nucleotide binding]; other site 491077002593 putative Zn2+ binding site [ion binding]; other site 491077002594 AsnC family; Region: AsnC_trans_reg; pfam01037 491077002595 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 491077002596 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 491077002597 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 491077002598 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 491077002599 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002600 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077002601 Integrase core domain; Region: rve; pfam00665 491077002602 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 491077002603 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491077002604 DNA binding site [nucleotide binding] 491077002605 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 491077002606 putative ligand binding site [chemical binding]; other site 491077002607 putative dimerization interface [polypeptide binding]; other site 491077002608 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 491077002609 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 491077002610 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 491077002611 galactokinase; Provisional; Region: PRK05322 491077002612 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 491077002613 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 491077002614 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 491077002615 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 491077002616 active site 491077002617 catalytic triad [active] 491077002618 oxyanion hole [active] 491077002619 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 491077002620 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 491077002621 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 491077002622 substrate binding site [chemical binding]; other site 491077002623 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 491077002624 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 491077002625 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 491077002626 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 491077002627 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 491077002628 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491077002629 active site 491077002630 catalytic tetrad [active] 491077002631 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491077002632 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 491077002633 active site 491077002634 phosphorylation site [posttranslational modification] 491077002635 intermolecular recognition site; other site 491077002636 dimerization interface [polypeptide binding]; other site 491077002637 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 491077002638 DNA binding site [nucleotide binding] 491077002639 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491077002640 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 491077002641 ATP binding site [chemical binding]; other site 491077002642 Mg2+ binding site [ion binding]; other site 491077002643 G-X-G motif; other site 491077002644 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 491077002645 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 491077002646 Walker A/P-loop; other site 491077002647 ATP binding site [chemical binding]; other site 491077002648 Q-loop/lid; other site 491077002649 ABC transporter signature motif; other site 491077002650 Walker B; other site 491077002651 D-loop; other site 491077002652 H-loop/switch region; other site 491077002653 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 491077002654 FtsX-like permease family; Region: FtsX; pfam02687 491077002655 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 491077002656 conserved cys residue [active] 491077002657 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 491077002658 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 491077002659 dimer interface [polypeptide binding]; other site 491077002660 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077002661 catalytic residue [active] 491077002662 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 491077002663 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 491077002664 DNA binding residues [nucleotide binding] 491077002665 dimer interface [polypeptide binding]; other site 491077002666 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 491077002667 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 491077002668 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 491077002669 putative active site [active] 491077002670 catalytic site [active] 491077002671 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 491077002672 putative active site [active] 491077002673 catalytic site [active] 491077002674 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 491077002675 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 491077002676 putative substrate translocation pore; other site 491077002677 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...; Region: Macro_Appr_pase_like; cd02908 491077002678 putative ADP-ribose binding site [chemical binding]; other site 491077002679 putative active site [active] 491077002680 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491077002681 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 491077002682 non-specific DNA binding site [nucleotide binding]; other site 491077002683 salt bridge; other site 491077002684 sequence-specific DNA binding site [nucleotide binding]; other site 491077002685 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 491077002686 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 491077002687 active site 491077002688 Zn binding site [ion binding]; other site 491077002689 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 491077002690 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 491077002691 metal ion-dependent adhesion site (MIDAS); other site 491077002692 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077002693 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 491077002694 Walker A motif; other site 491077002695 ATP binding site [chemical binding]; other site 491077002696 Walker B motif; other site 491077002697 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 491077002698 active site 491077002699 DNA binding site [nucleotide binding] 491077002700 Uncharacterized conserved protein [Function unknown]; Region: COG3189 491077002701 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002702 Integrase core domain; Region: rve; pfam00665 491077002703 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 491077002704 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491077002705 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002706 Integrase core domain; Region: rve; pfam00665 491077002707 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 491077002708 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 491077002709 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 491077002710 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 491077002711 Predicted membrane protein [Function unknown]; Region: COG4905 491077002712 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 491077002713 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 491077002714 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491077002715 Walker A/P-loop; other site 491077002716 ATP binding site [chemical binding]; other site 491077002717 Q-loop/lid; other site 491077002718 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491077002719 ABC transporter signature motif; other site 491077002720 Walker B; other site 491077002721 D-loop; other site 491077002722 ABC transporter; Region: ABC_tran_2; pfam12848 491077002723 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491077002724 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002725 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077002726 Integrase core domain; Region: rve; pfam00665 491077002727 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 491077002728 putative DNA binding site [nucleotide binding]; other site 491077002729 putative Zn2+ binding site [ion binding]; other site 491077002730 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 491077002731 arsenical-resistance protein; Region: acr3; TIGR00832 491077002732 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 491077002733 Low molecular weight phosphatase family; Region: LMWPc; cd00115 491077002734 active site 491077002735 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 491077002736 dimerization interface [polypeptide binding]; other site 491077002737 putative DNA binding site [nucleotide binding]; other site 491077002738 putative Zn2+ binding site [ion binding]; other site 491077002739 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 491077002740 Cadmium resistance transporter; Region: Cad; pfam03596 491077002741 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491077002742 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 491077002743 non-specific DNA binding site [nucleotide binding]; other site 491077002744 salt bridge; other site 491077002745 sequence-specific DNA binding site [nucleotide binding]; other site 491077002746 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 491077002747 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491077002748 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 491077002749 non-specific DNA binding site [nucleotide binding]; other site 491077002750 salt bridge; other site 491077002751 sequence-specific DNA binding site [nucleotide binding]; other site 491077002752 Protein of unknown function (DUF3278); Region: DUF3278; pfam11683 491077002753 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 491077002754 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 491077002755 NlpC/P60 family; Region: NLPC_P60; pfam00877 491077002756 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 491077002757 zinc binding site [ion binding]; other site 491077002758 putative ligand binding site [chemical binding]; other site 491077002759 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 491077002760 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491077002761 TM-ABC transporter signature motif; other site 491077002762 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 491077002763 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491077002764 Walker A/P-loop; other site 491077002765 ATP binding site [chemical binding]; other site 491077002766 Q-loop/lid; other site 491077002767 ABC transporter signature motif; other site 491077002768 Walker B; other site 491077002769 D-loop; other site 491077002770 H-loop/switch region; other site 491077002771 Cadmium resistance transporter; Region: Cad; pfam03596 491077002772 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 491077002773 dimerization interface [polypeptide binding]; other site 491077002774 putative DNA binding site [nucleotide binding]; other site 491077002775 putative Zn2+ binding site [ion binding]; other site 491077002776 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 491077002777 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 491077002778 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077002779 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077002780 Transposase; Region: DEDD_Tnp_IS110; pfam01548 491077002781 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 491077002782 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 491077002783 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002784 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077002785 Integrase core domain; Region: rve; pfam00665 491077002786 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 491077002787 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 491077002788 catalytic residues [active] 491077002789 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 491077002790 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 491077002791 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 491077002792 active site 491077002793 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 491077002794 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 491077002795 Cl binding site [ion binding]; other site 491077002796 oligomer interface [polypeptide binding]; other site 491077002797 Peptidase family C69; Region: Peptidase_C69; pfam03577 491077002798 xanthine permease; Region: pbuX; TIGR03173 491077002799 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 491077002800 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002801 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077002802 Integrase core domain; Region: rve; pfam00665 491077002803 potential frameshift: common BLAST hit: gi|148545042|ref|YP_001272412.1| C4-dicarboxylate anaerobic carrier 491077002804 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 491077002805 Predicted membrane protein [Function unknown]; Region: COG1288 491077002806 classical (c) SDRs; Region: SDR_c; cd05233 491077002807 active site 491077002808 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077002809 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077002810 Probable transposase; Region: OrfB_IS605; pfam01385 491077002811 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 491077002812 Transposase IS200 like; Region: Y1_Tnp; pfam01797 491077002813 Transcriptional regulator [Transcription]; Region: IclR; COG1414 491077002814 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 491077002815 Bacterial transcriptional regulator; Region: IclR; pfam01614 491077002816 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 491077002817 catalytic core [active] 491077002818 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 491077002819 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 491077002820 Sulfatase; Region: Sulfatase; pfam00884 491077002821 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 491077002822 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 491077002823 dimer interface [polypeptide binding]; other site 491077002824 active site 491077002825 metal binding site [ion binding]; metal-binding site 491077002826 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002827 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077002828 Integrase core domain; Region: rve; pfam00665 491077002829 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 491077002830 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077002831 putative active site [active] 491077002832 putative NTP binding site [chemical binding]; other site 491077002833 putative nucleic acid binding site [nucleotide binding]; other site 491077002834 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077002835 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 491077002836 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002837 Integrase core domain; Region: rve; pfam00665 491077002838 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 491077002839 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 491077002840 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 491077002841 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 491077002842 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 491077002843 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 491077002844 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 491077002845 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 491077002846 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 491077002847 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 491077002848 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 491077002849 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 491077002850 dimer interface [polypeptide binding]; other site 491077002851 motif 1; other site 491077002852 active site 491077002853 motif 2; other site 491077002854 motif 3; other site 491077002855 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 491077002856 anticodon binding site; other site 491077002857 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 491077002858 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491077002859 putative substrate translocation pore; other site 491077002860 Uncharacterized conserved protein [Function unknown]; Region: COG4095 491077002861 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491077002862 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491077002863 DNA binding site [nucleotide binding] 491077002864 domain linker motif; other site 491077002865 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 491077002866 dimerization interface [polypeptide binding]; other site 491077002867 ligand binding site [chemical binding]; other site 491077002868 sodium binding site [ion binding]; other site 491077002869 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 491077002870 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 491077002871 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 491077002872 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 491077002873 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 491077002874 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 491077002875 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 491077002876 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 491077002877 dimerization interface [polypeptide binding]; other site 491077002878 putative DNA binding site [nucleotide binding]; other site 491077002879 putative Zn2+ binding site [ion binding]; other site 491077002880 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 491077002881 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 491077002882 Walker A/P-loop; other site 491077002883 ATP binding site [chemical binding]; other site 491077002884 Q-loop/lid; other site 491077002885 ABC transporter signature motif; other site 491077002886 Walker B; other site 491077002887 D-loop; other site 491077002888 H-loop/switch region; other site 491077002889 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 491077002890 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 491077002891 FtsX-like permease family; Region: FtsX; pfam02687 491077002892 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 491077002893 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 491077002894 Walker A/P-loop; other site 491077002895 ATP binding site [chemical binding]; other site 491077002896 Q-loop/lid; other site 491077002897 ABC transporter signature motif; other site 491077002898 Walker B; other site 491077002899 D-loop; other site 491077002900 H-loop/switch region; other site 491077002901 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 491077002902 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 491077002903 FtsX-like permease family; Region: FtsX; pfam02687 491077002904 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491077002905 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491077002906 L-threonine dehydrogenase; Region: threonine_DH_like; cd08234 491077002907 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 491077002908 putative NAD(P) binding site [chemical binding]; other site 491077002909 catalytic Zn binding site [ion binding]; other site 491077002910 manganese transport protein MntH; Reviewed; Region: PRK00701 491077002911 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 491077002912 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 491077002913 Helix-turn-helix domain; Region: HTH_28; pfam13518 491077002914 putative transposase OrfB; Reviewed; Region: PHA02517 491077002915 HTH-like domain; Region: HTH_21; pfam13276 491077002916 Integrase core domain; Region: rve; pfam00665 491077002917 Integrase core domain; Region: rve_3; pfam13683 491077002918 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 491077002919 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 491077002920 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 491077002921 active site 491077002922 dimer interface [polypeptide binding]; other site 491077002923 motif 1; other site 491077002924 motif 2; other site 491077002925 motif 3; other site 491077002926 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 491077002927 anticodon binding site; other site 491077002928 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 491077002929 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 491077002930 putative substrate translocation pore; other site 491077002931 potential frameshift: common BLAST hit: gi|148545069|ref|YP_001272439.1| type I phosphodiesterase/nucleotide pyrophosphatase 491077002932 potential frameshift: common BLAST hit: gi|148545069|ref|YP_001272439.1| type I phosphodiesterase/nucleotide pyrophosphatase 491077002933 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 491077002934 Uncharacterized conserved protein [Function unknown]; Region: COG3379 491077002935 amino acid transporter; Region: 2A0306; TIGR00909 491077002936 potential frameshift: common BLAST hit: gi|148545071|ref|YP_001272441.1| 2-dehydropantoate 2-reductase 491077002937 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 491077002938 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 491077002939 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 491077002940 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 491077002941 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002942 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077002943 Integrase core domain; Region: rve; pfam00665 491077002944 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002945 Integrase core domain; Region: rve; pfam00665 491077002946 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 491077002947 Coenzyme A binding pocket [chemical binding]; other site 491077002948 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 491077002949 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 491077002950 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077002951 NADH(P)-binding; Region: NAD_binding_10; pfam13460 491077002952 NAD(P) binding site [chemical binding]; other site 491077002953 active site 491077002954 Predicted transcriptional regulators [Transcription]; Region: COG1733 491077002955 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 491077002956 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 491077002957 dimer interface [polypeptide binding]; other site 491077002958 FMN binding site [chemical binding]; other site 491077002959 Predicted transcriptional regulators [Transcription]; Region: COG1733 491077002960 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 491077002961 dimerization interface [polypeptide binding]; other site 491077002962 putative DNA binding site [nucleotide binding]; other site 491077002963 putative Zn2+ binding site [ion binding]; other site 491077002964 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 491077002965 putative substrate translocation pore; other site 491077002966 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491077002967 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 is...; Region: Peptidase_C1B; cd00585 491077002968 trimer interface [polypeptide binding]; other site 491077002969 active site 491077002970 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 491077002971 NADH(P)-binding; Region: NAD_binding_10; pfam13460 491077002972 NAD(P) binding site [chemical binding]; other site 491077002973 putative active site [active] 491077002974 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 491077002975 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 491077002976 Zn binding site [ion binding]; other site 491077002977 Predicted transcriptional regulator [Transcription]; Region: COG1959 491077002978 Transcriptional regulator; Region: Rrf2; pfam02082 491077002979 T-box leader; HMPREF0538_nc20023 491077002980 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 491077002981 dimer interface [polypeptide binding]; other site 491077002982 active site 491077002983 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 491077002984 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 491077002985 putative dimer interface [polypeptide binding]; other site 491077002986 putative anticodon binding site; other site 491077002987 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 491077002988 homodimer interface [polypeptide binding]; other site 491077002989 motif 1; other site 491077002990 motif 2; other site 491077002991 active site 491077002992 motif 3; other site 491077002993 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002994 Integrase core domain; Region: rve; pfam00665 491077002995 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077002996 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077002997 Integrase core domain; Region: rve; pfam00665 491077002998 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 491077002999 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 491077003000 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 491077003001 catalytic triad [active] 491077003002 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 491077003003 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077003004 NmrA-like family; Region: NmrA; pfam05368 491077003005 NAD(P) binding site [chemical binding]; other site 491077003006 active site 491077003007 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 491077003008 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491077003009 active site 491077003010 catalytic tetrad [active] 491077003011 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003012 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077003013 Integrase core domain; Region: rve; pfam00665 491077003014 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491077003015 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491077003016 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 491077003017 homodimer interface [polypeptide binding]; other site 491077003018 active site 491077003019 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 491077003020 Predicted secreted protein [Function unknown]; Region: COG4086 491077003021 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 491077003022 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491077003023 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 491077003024 NAD binding site [chemical binding]; other site 491077003025 dimer interface [polypeptide binding]; other site 491077003026 substrate binding site [chemical binding]; other site 491077003027 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 491077003028 T-box leader; HMPREF0538_nc20024 491077003029 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 491077003030 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 491077003031 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 491077003032 putative trimer interface [polypeptide binding]; other site 491077003033 putative CoA binding site [chemical binding]; other site 491077003034 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 491077003035 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 491077003036 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491077003037 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 491077003038 dimer interface [polypeptide binding]; other site 491077003039 phosphorylation site [posttranslational modification] 491077003040 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 491077003041 ATP binding site [chemical binding]; other site 491077003042 Mg2+ binding site [ion binding]; other site 491077003043 G-X-G motif; other site 491077003044 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491077003045 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 491077003046 active site 491077003047 phosphorylation site [posttranslational modification] 491077003048 intermolecular recognition site; other site 491077003049 dimerization interface [polypeptide binding]; other site 491077003050 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 491077003051 DNA binding site [nucleotide binding] 491077003052 RibD C-terminal domain; Region: RibD_C; cl17279 491077003053 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003054 Integrase core domain; Region: rve; pfam00665 491077003055 Beta-lactamase; Region: Beta-lactamase; pfam00144 491077003056 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 491077003057 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491077003058 active site 491077003059 MgtC family; Region: MgtC; pfam02308 491077003060 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 491077003061 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003062 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077003063 Integrase core domain; Region: rve; pfam00665 491077003064 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 491077003065 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 491077003066 AzlC protein; Region: AzlC; cl00570 491077003067 Transposase IS200 like; Region: Y1_Tnp; pfam01797 491077003068 AzlC protein; Region: AzlC; cl00570 491077003069 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 491077003070 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491077003071 DNA-binding site [nucleotide binding]; DNA binding site 491077003072 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 491077003073 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077003074 homodimer interface [polypeptide binding]; other site 491077003075 catalytic residue [active] 491077003076 potential frameshift: common BLAST hit: gi|148545131|ref|YP_001272501.1| amidohydrolase 3 491077003077 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 491077003078 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 491077003079 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077003080 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 491077003081 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077003082 putative active site [active] 491077003083 putative NTP binding site [chemical binding]; other site 491077003084 putative nucleic acid binding site [nucleotide binding]; other site 491077003085 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 491077003086 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491077003087 Coenzyme A binding pocket [chemical binding]; other site 491077003088 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 491077003089 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), the...; Region: Peptidase_S24_S26; cd06462 491077003090 Catalytic site [active] 491077003091 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 491077003092 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 491077003093 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 491077003094 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 491077003095 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 491077003096 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491077003097 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 491077003098 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 491077003099 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 491077003100 active site 491077003101 dimer interface [polypeptide binding]; other site 491077003102 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 491077003103 Ligand Binding Site [chemical binding]; other site 491077003104 Molecular Tunnel; other site 491077003105 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 491077003106 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 491077003107 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 491077003108 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 491077003109 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 491077003110 trmE is a tRNA modification GTPase; Region: trmE; cd04164 491077003111 G1 box; other site 491077003112 GTP/Mg2+ binding site [chemical binding]; other site 491077003113 Switch I region; other site 491077003114 G2 box; other site 491077003115 Switch II region; other site 491077003116 G3 box; other site 491077003117 G4 box; other site 491077003118 G5 box; other site 491077003119 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 491077003120 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 491077003121 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 491077003122 G-X-X-G motif; other site 491077003123 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 491077003124 RxxxH motif; other site 491077003125 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 491077003126 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 491077003127 ribonuclease P; Reviewed; Region: rnpA; PRK00499 491077003128 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 491077003129 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 491077003130 DnaA N-terminal domain; Region: DnaA_N; pfam11638 491077003131 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077003132 Walker A motif; other site 491077003133 ATP binding site [chemical binding]; other site 491077003134 Walker B motif; other site 491077003135 arginine finger; other site 491077003136 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 491077003137 DnaA box-binding interface [nucleotide binding]; other site 491077003138 DNA polymerase III subunit beta; Validated; Region: PRK05643 491077003139 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 491077003140 putative DNA binding surface [nucleotide binding]; other site 491077003141 dimer interface [polypeptide binding]; other site 491077003142 beta-clamp/clamp loader binding surface; other site 491077003143 beta-clamp/translesion DNA polymerase binding surface; other site 491077003144 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 491077003145 recombination protein F; Reviewed; Region: recF; PRK00064 491077003146 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 491077003147 Walker A/P-loop; other site 491077003148 ATP binding site [chemical binding]; other site 491077003149 Q-loop/lid; other site 491077003150 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491077003151 ABC transporter signature motif; other site 491077003152 Walker B; other site 491077003153 D-loop; other site 491077003154 H-loop/switch region; other site 491077003155 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 491077003156 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 491077003157 Mg2+ binding site [ion binding]; other site 491077003158 G-X-G motif; other site 491077003159 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 491077003160 anchoring element; other site 491077003161 dimer interface [polypeptide binding]; other site 491077003162 ATP binding site [chemical binding]; other site 491077003163 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 491077003164 active site 491077003165 putative metal-binding site [ion binding]; other site 491077003166 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 491077003167 DNA gyrase subunit A; Validated; Region: PRK05560 491077003168 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 491077003169 CAP-like domain; other site 491077003170 active site 491077003171 primary dimer interface [polypeptide binding]; other site 491077003172 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491077003173 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491077003174 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491077003175 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491077003176 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491077003177 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491077003178 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 491077003179 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 491077003180 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 491077003181 dimer interface [polypeptide binding]; other site 491077003182 ssDNA binding site [nucleotide binding]; other site 491077003183 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491077003184 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 491077003185 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 491077003186 intersubunit interface [polypeptide binding]; other site 491077003187 catalytic residue [active] 491077003188 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 491077003189 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 491077003190 DNA binding residues [nucleotide binding] 491077003191 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 491077003192 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 491077003193 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 491077003194 DHH family; Region: DHH; pfam01368 491077003195 DHHA1 domain; Region: DHHA1; pfam02272 491077003196 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 491077003197 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 491077003198 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 491077003199 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 491077003200 replicative DNA helicase; Provisional; Region: PRK05748 491077003201 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 491077003202 Walker A motif; other site 491077003203 ATP binding site [chemical binding]; other site 491077003204 Walker B motif; other site 491077003205 DNA binding loops [nucleotide binding] 491077003206 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 491077003207 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491077003208 putative substrate translocation pore; other site 491077003209 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 491077003210 Fic family protein [Function unknown]; Region: COG3177 491077003211 Fic/DOC family; Region: Fic; pfam02661 491077003212 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 491077003213 MarR family; Region: MarR_2; pfam12802 491077003214 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 491077003215 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491077003216 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491077003217 Walker A/P-loop; other site 491077003218 ATP binding site [chemical binding]; other site 491077003219 Q-loop/lid; other site 491077003220 ABC transporter signature motif; other site 491077003221 Walker B; other site 491077003222 D-loop; other site 491077003223 H-loop/switch region; other site 491077003224 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491077003225 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 491077003226 active site 491077003227 phosphorylation site [posttranslational modification] 491077003228 intermolecular recognition site; other site 491077003229 dimerization interface [polypeptide binding]; other site 491077003230 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 491077003231 DNA binding site [nucleotide binding] 491077003232 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 491077003233 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 491077003234 dimerization interface [polypeptide binding]; other site 491077003235 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 491077003236 putative active site [active] 491077003237 heme pocket [chemical binding]; other site 491077003238 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 491077003239 dimer interface [polypeptide binding]; other site 491077003240 phosphorylation site [posttranslational modification] 491077003241 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 491077003242 ATP binding site [chemical binding]; other site 491077003243 Mg2+ binding site [ion binding]; other site 491077003244 G-X-G motif; other site 491077003245 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 491077003246 YycH protein; Region: YycH; pfam07435 491077003247 YycH protein; Region: YycI; pfam09648 491077003248 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 491077003249 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 491077003250 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 491077003251 protein binding site [polypeptide binding]; other site 491077003252 Transposase; Region: DEDD_Tnp_IS110; pfam01548 491077003253 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 491077003254 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 491077003255 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 491077003256 tetramer interfaces [polypeptide binding]; other site 491077003257 binuclear metal-binding site [ion binding]; other site 491077003258 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 491077003259 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 491077003260 zinc binding site [ion binding]; other site 491077003261 putative ligand binding site [chemical binding]; other site 491077003262 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 491077003263 Predicted flavoprotein [General function prediction only]; Region: COG0431 491077003264 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491077003265 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 491077003266 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 491077003267 dimer interface [polypeptide binding]; other site 491077003268 active site 491077003269 metal binding site [ion binding]; metal-binding site 491077003270 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003271 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077003272 Integrase core domain; Region: rve; pfam00665 491077003273 OsmC-like protein; Region: OsmC; pfam02566 491077003274 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 491077003275 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 491077003276 NAD binding site [chemical binding]; other site 491077003277 aromatic amino acid aminotransferase; Validated; Region: PRK07309 491077003278 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 491077003279 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077003280 homodimer interface [polypeptide binding]; other site 491077003281 catalytic residue [active] 491077003282 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077003283 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 491077003284 Walker A motif; other site 491077003285 ATP binding site [chemical binding]; other site 491077003286 Walker B motif; other site 491077003287 arginine finger; other site 491077003288 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077003289 Walker A motif; other site 491077003290 ATP binding site [chemical binding]; other site 491077003291 Walker B motif; other site 491077003292 arginine finger; other site 491077003293 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 491077003294 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491077003295 Coenzyme A binding pocket [chemical binding]; other site 491077003296 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 491077003297 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 491077003298 putative active site [active] 491077003299 catalytic site [active] 491077003300 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 491077003301 putative active site [active] 491077003302 catalytic site [active] 491077003303 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 491077003304 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 491077003305 Part of AAA domain; Region: AAA_19; pfam13245 491077003306 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 491077003307 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 491077003308 Family description; Region: UvrD_C_2; pfam13538 491077003309 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 491077003310 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491077003311 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491077003312 DNA binding site [nucleotide binding] 491077003313 domain linker motif; other site 491077003314 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 491077003315 putative dimerization interface [polypeptide binding]; other site 491077003316 putative ligand binding site [chemical binding]; other site 491077003317 putative acyltransferase; Provisional; Region: PRK05790 491077003318 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 491077003319 dimer interface [polypeptide binding]; other site 491077003320 active site 491077003321 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 491077003322 putative substrate translocation pore; other site 491077003323 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491077003324 maltose phosphorylase; Provisional; Region: PRK13807 491077003325 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 491077003326 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 491077003327 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 491077003328 beta-phosphoglucomutase; Region: bPGM; TIGR01990 491077003329 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 491077003330 motif II; other site 491077003331 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 491077003332 synthetase active site [active] 491077003333 NTP binding site [chemical binding]; other site 491077003334 metal binding site [ion binding]; metal-binding site 491077003335 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491077003336 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 491077003337 active site 491077003338 phosphorylation site [posttranslational modification] 491077003339 intermolecular recognition site; other site 491077003340 dimerization interface [polypeptide binding]; other site 491077003341 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 491077003342 DNA binding site [nucleotide binding] 491077003343 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491077003344 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 491077003345 dimer interface [polypeptide binding]; other site 491077003346 phosphorylation site [posttranslational modification] 491077003347 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 491077003348 ATP binding site [chemical binding]; other site 491077003349 Mg2+ binding site [ion binding]; other site 491077003350 G-X-G motif; other site 491077003351 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; cl02915 491077003352 Cl- selectivity filter; other site 491077003353 Cl- binding residues [ion binding]; other site 491077003354 pore gating glutamate residue; other site 491077003355 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 491077003356 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 491077003357 Peptidase C26; Region: Peptidase_C26; pfam07722 491077003358 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 491077003359 catalytic triad [active] 491077003360 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 491077003361 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491077003362 active site 491077003363 catalytic tetrad [active] 491077003364 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 491077003365 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 491077003366 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 491077003367 putative active site [active] 491077003368 catalytic site [active] 491077003369 putative metal binding site [ion binding]; other site 491077003370 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 491077003371 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 491077003372 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 491077003373 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491077003374 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 491077003375 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 491077003376 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 491077003377 active site 491077003378 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 491077003379 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 491077003380 GDP-binding site [chemical binding]; other site 491077003381 ACT binding site; other site 491077003382 IMP binding site; other site 491077003383 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 491077003384 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491077003385 active site 491077003386 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 491077003387 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077003388 putative active site [active] 491077003389 putative NTP binding site [chemical binding]; other site 491077003390 putative nucleic acid binding site [nucleotide binding]; other site 491077003391 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077003392 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 491077003393 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 491077003394 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 491077003395 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491077003396 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 491077003397 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 491077003398 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491077003399 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 491077003400 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 491077003401 active site 491077003402 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491077003403 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 491077003404 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 491077003405 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077003406 putative active site [active] 491077003407 putative NTP binding site [chemical binding]; other site 491077003408 putative nucleic acid binding site [nucleotide binding]; other site 491077003409 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077003410 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 491077003411 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 491077003412 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 491077003413 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 491077003414 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 491077003415 ATP-grasp domain; Region: ATP-grasp_4; cl17255 491077003416 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 491077003417 substrate binding site [chemical binding]; other site 491077003418 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 491077003419 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 491077003420 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 491077003421 catalytic site [active] 491077003422 subunit interface [polypeptide binding]; other site 491077003423 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 491077003424 putative substrate translocation pore; other site 491077003425 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491077003426 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491077003427 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491077003428 DNA binding site [nucleotide binding] 491077003429 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 491077003430 dimerization interface [polypeptide binding]; other site 491077003431 ligand binding site [chemical binding]; other site 491077003432 TRAM domain; Region: TRAM; pfam01938 491077003433 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 491077003434 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 491077003435 S-adenosylmethionine binding site [chemical binding]; other site 491077003436 Predicted flavoprotein [General function prediction only]; Region: COG0431 491077003437 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491077003438 Predicted flavoprotein [General function prediction only]; Region: COG0431 491077003439 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491077003440 PAS domain; Region: PAS_10; pfam13596 491077003441 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 491077003442 ApbE family; Region: ApbE; pfam02424 491077003443 potential frameshift: common BLAST hit: gi|148543586|ref|YP_001270956.1| transposase, IS4 family protein 491077003444 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 491077003445 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 491077003446 potential frameshift: common BLAST hit: gi|148543586|ref|YP_001270956.1| transposase, IS4 family protein 491077003447 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 491077003448 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 491077003449 T-box leader; HMPREF0538_nc20029 491077003450 seryl-tRNA synthetase; Provisional; Region: PRK05431 491077003451 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 491077003452 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 491077003453 dimer interface [polypeptide binding]; other site 491077003454 active site 491077003455 motif 1; other site 491077003456 motif 2; other site 491077003457 motif 3; other site 491077003458 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003459 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077003460 Integrase core domain; Region: rve; pfam00665 491077003461 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 491077003462 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491077003463 substrate binding pocket [chemical binding]; other site 491077003464 membrane-bound complex binding site; other site 491077003465 hinge residues; other site 491077003466 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491077003467 dimer interface [polypeptide binding]; other site 491077003468 conserved gate region; other site 491077003469 putative PBP binding loops; other site 491077003470 ABC-ATPase subunit interface; other site 491077003471 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491077003472 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491077003473 Walker A/P-loop; other site 491077003474 ATP binding site [chemical binding]; other site 491077003475 Q-loop/lid; other site 491077003476 ABC transporter signature motif; other site 491077003477 Walker B; other site 491077003478 D-loop; other site 491077003479 H-loop/switch region; other site 491077003480 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491077003481 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 491077003482 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 491077003483 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 491077003484 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 491077003485 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 491077003486 active site 491077003487 tetramer interface [polypeptide binding]; other site 491077003488 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08293 491077003489 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 491077003490 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 491077003491 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 491077003492 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 491077003493 S-adenosylmethionine binding site [chemical binding]; other site 491077003494 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 491077003495 ParB-like nuclease domain; Region: ParBc; pfam02195 491077003496 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 491077003497 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 491077003498 P-loop; other site 491077003499 Magnesium ion binding site [ion binding]; other site 491077003500 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 491077003501 ParB-like nuclease domain; Region: ParB; smart00470 491077003502 KorB domain; Region: KorB; pfam08535 491077003503 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 491077003504 GTP-binding protein YchF; Reviewed; Region: PRK09601 491077003505 YchF GTPase; Region: YchF; cd01900 491077003506 G1 box; other site 491077003507 GTP/Mg2+ binding site [chemical binding]; other site 491077003508 Switch I region; other site 491077003509 G2 box; other site 491077003510 Switch II region; other site 491077003511 G3 box; other site 491077003512 G4 box; other site 491077003513 G5 box; other site 491077003514 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 491077003515 hypothetical protein; Validated; Region: PRK07668 491077003516 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 491077003517 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 491077003518 intersubunit interface [polypeptide binding]; other site 491077003519 active site 491077003520 catalytic residue [active] 491077003521 phosphopentomutase; Provisional; Region: PRK05362 491077003522 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 491077003523 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 491077003524 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 491077003525 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 491077003526 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 491077003527 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 491077003528 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 491077003529 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 491077003530 DNA binding residues [nucleotide binding] 491077003531 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 491077003532 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK06843 491077003533 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 491077003534 active site 491077003535 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491077003536 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 491077003537 active site 491077003538 phosphorylation site [posttranslational modification] 491077003539 intermolecular recognition site; other site 491077003540 dimerization interface [polypeptide binding]; other site 491077003541 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 491077003542 DNA binding site [nucleotide binding] 491077003543 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491077003544 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 491077003545 dimer interface [polypeptide binding]; other site 491077003546 phosphorylation site [posttranslational modification] 491077003547 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 491077003548 ATP binding site [chemical binding]; other site 491077003549 Mg2+ binding site [ion binding]; other site 491077003550 G-X-G motif; other site 491077003551 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003552 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077003553 Integrase core domain; Region: rve; pfam00665 491077003554 AzlC protein; Region: AzlC; pfam03591 491077003555 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 491077003556 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491077003557 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491077003558 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 491077003559 dimerization interface [polypeptide binding]; other site 491077003560 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 491077003561 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 491077003562 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 491077003563 dihydroorotase; Validated; Region: pyrC; PRK09357 491077003564 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 491077003565 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 491077003566 active site 491077003567 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 491077003568 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 491077003569 heterodimer interface [polypeptide binding]; other site 491077003570 active site 491077003571 FMN binding site [chemical binding]; other site 491077003572 homodimer interface [polypeptide binding]; other site 491077003573 substrate binding site [chemical binding]; other site 491077003574 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 491077003575 active site 491077003576 dimer interface [polypeptide binding]; other site 491077003577 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491077003578 active site 491077003579 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 491077003580 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 491077003581 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 491077003582 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 491077003583 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 491077003584 S-adenosylmethionine binding site [chemical binding]; other site 491077003585 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 491077003586 Domain of unknown function DUF20; Region: UPF0118; pfam01594 491077003587 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 491077003588 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 491077003589 Potassium binding sites [ion binding]; other site 491077003590 Cesium cation binding sites [ion binding]; other site 491077003591 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077003592 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077003593 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003594 Integrase core domain; Region: rve; pfam00665 491077003595 acetolactate synthase; Reviewed; Region: PRK08617 491077003596 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 491077003597 PYR/PP interface [polypeptide binding]; other site 491077003598 dimer interface [polypeptide binding]; other site 491077003599 TPP binding site [chemical binding]; other site 491077003600 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 491077003601 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 491077003602 TPP-binding site [chemical binding]; other site 491077003603 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 491077003604 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491077003605 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491077003606 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 491077003607 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 491077003608 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077003609 catalytic residue [active] 491077003610 homoserine dehydrogenase; Provisional; Region: PRK06349 491077003611 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 491077003612 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 491077003613 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 491077003614 homoserine kinase; Provisional; Region: PRK01212 491077003615 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 491077003616 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 491077003617 AIR carboxylase; Region: AIRC; pfam00731 491077003618 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 491077003619 ATP-grasp domain; Region: ATP-grasp; pfam02222 491077003620 adenylosuccinate lyase; Provisional; Region: PRK07492 491077003621 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 491077003622 tetramer interface [polypeptide binding]; other site 491077003623 active site 491077003624 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 491077003625 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 491077003626 ATP binding site [chemical binding]; other site 491077003627 active site 491077003628 substrate binding site [chemical binding]; other site 491077003629 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 491077003630 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 491077003631 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 491077003632 putative active site [active] 491077003633 catalytic triad [active] 491077003634 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 491077003635 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 491077003636 dimerization interface [polypeptide binding]; other site 491077003637 ATP binding site [chemical binding]; other site 491077003638 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 491077003639 dimerization interface [polypeptide binding]; other site 491077003640 ATP binding site [chemical binding]; other site 491077003641 amidophosphoribosyltransferase; Provisional; Region: PRK07272 491077003642 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 491077003643 active site 491077003644 tetramer interface [polypeptide binding]; other site 491077003645 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491077003646 active site 491077003647 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 491077003648 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 491077003649 dimerization interface [polypeptide binding]; other site 491077003650 putative ATP binding site [chemical binding]; other site 491077003651 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 491077003652 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 491077003653 active site 491077003654 substrate binding site [chemical binding]; other site 491077003655 cosubstrate binding site; other site 491077003656 catalytic site [active] 491077003657 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 491077003658 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 491077003659 purine monophosphate binding site [chemical binding]; other site 491077003660 dimer interface [polypeptide binding]; other site 491077003661 putative catalytic residues [active] 491077003662 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 491077003663 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 491077003664 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 491077003665 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 491077003666 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 491077003667 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 491077003668 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 491077003669 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 491077003670 catalytic core [active] 491077003671 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 491077003672 Protein of unknown function (DUF975); Region: DUF975; cl10504 491077003673 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 491077003674 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 491077003675 active site 491077003676 HIGH motif; other site 491077003677 dimer interface [polypeptide binding]; other site 491077003678 KMSKS motif; other site 491077003679 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 491077003680 RNA binding surface [nucleotide binding]; other site 491077003681 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 491077003682 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 491077003683 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 491077003684 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 491077003685 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 491077003686 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 491077003687 TIGR02687 family protein; Region: TIGR02687 491077003688 PglZ domain; Region: PglZ; pfam08665 491077003689 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 491077003690 Helix-turn-helix domain; Region: HTH_28; pfam13518 491077003691 putative transposase OrfB; Reviewed; Region: PHA02517 491077003692 HTH-like domain; Region: HTH_21; pfam13276 491077003693 Integrase core domain; Region: rve; pfam00665 491077003694 Integrase core domain; Region: rve_3; pfam13683 491077003695 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 491077003696 non-specific DNA binding site [nucleotide binding]; other site 491077003697 salt bridge; other site 491077003698 sequence-specific DNA binding site [nucleotide binding]; other site 491077003699 NOPS domain, including C-terminal helical extension region, in the p54nrb/PSF/PSP1 family; Region: eNOPS_SF; cl06904 491077003700 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 491077003701 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 491077003702 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 491077003703 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 491077003704 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077003705 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077003706 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 491077003707 catalytic residues [active] 491077003708 catalytic nucleophile [active] 491077003709 Presynaptic Site I dimer interface [polypeptide binding]; other site 491077003710 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 491077003711 Synaptic Flat tetramer interface [polypeptide binding]; other site 491077003712 Synaptic Site I dimer interface [polypeptide binding]; other site 491077003713 DNA binding site [nucleotide binding] 491077003714 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 491077003715 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 491077003716 Helix-turn-helix domain; Region: HTH_17; cl17695 491077003717 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 491077003718 active site 491077003719 DNA binding site [nucleotide binding] 491077003720 Int/Topo IB signature motif; other site 491077003721 Fic family protein [Function unknown]; Region: COG3177 491077003722 Fic/DOC family; Region: Fic; pfam02661 491077003723 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003724 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077003725 Integrase core domain; Region: rve; pfam00665 491077003726 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 491077003727 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 491077003728 VanZ like family; Region: VanZ; cl01971 491077003729 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491077003730 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491077003731 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 491077003732 dimerization interface [polypeptide binding]; other site 491077003733 Predicted membrane protein [Function unknown]; Region: COG2855 491077003734 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003735 Integrase core domain; Region: rve; pfam00665 491077003736 NADH(P)-binding; Region: NAD_binding_10; pfam13460 491077003737 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077003738 NAD(P) binding site [chemical binding]; other site 491077003739 active site 491077003740 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 491077003741 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 491077003742 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 491077003743 Cation efflux family; Region: Cation_efflux; pfam01545 491077003744 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 491077003745 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 491077003746 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 491077003747 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 491077003748 triosephosphate isomerase; Provisional; Region: PRK14565 491077003749 substrate binding site [chemical binding]; other site 491077003750 dimer interface [polypeptide binding]; other site 491077003751 catalytic triad [active] 491077003752 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003753 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077003754 Integrase core domain; Region: rve; pfam00665 491077003755 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 491077003756 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491077003757 active site 491077003758 catalytic tetrad [active] 491077003759 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; cd01610 491077003760 active site 491077003761 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 491077003762 PLD-like domain; Region: PLDc_2; pfam13091 491077003763 putative homodimer interface [polypeptide binding]; other site 491077003764 putative active site [active] 491077003765 catalytic site [active] 491077003766 DEAD-like helicases superfamily; Region: DEXDc; smart00487 491077003767 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 491077003768 ATP binding site [chemical binding]; other site 491077003769 putative Mg++ binding site [ion binding]; other site 491077003770 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 491077003771 nucleotide binding region [chemical binding]; other site 491077003772 ATP-binding site [chemical binding]; other site 491077003773 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 491077003774 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 491077003775 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491077003776 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 491077003777 DNA polymerase III subunit epsilon; Validated; Region: PRK06310 491077003778 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 491077003779 active site 491077003780 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 491077003781 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 491077003782 Soluble P-type ATPase [General function prediction only]; Region: COG4087 491077003783 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; cl17415 491077003784 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 491077003785 potential frameshift: common BLAST hit: gi|148543419|ref|YP_001270789.1| 3-beta hydroxysteroid dehydrogenase/isomerase 491077003786 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077003787 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 491077003788 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077003789 NAD(P) binding site [chemical binding]; other site 491077003790 active site 491077003791 Predicted transcriptional regulator [Transcription]; Region: COG1959 491077003792 Transcriptional regulator; Region: Rrf2; pfam02082 491077003793 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 491077003794 TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes:...; Region: TBP_TLF; cl08263 491077003795 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491077003796 dimer interface [polypeptide binding]; other site 491077003797 conserved gate region; other site 491077003798 ABC-ATPase subunit interface; other site 491077003799 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 491077003800 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 491077003801 Walker A/P-loop; other site 491077003802 ATP binding site [chemical binding]; other site 491077003803 Q-loop/lid; other site 491077003804 ABC transporter signature motif; other site 491077003805 Walker B; other site 491077003806 D-loop; other site 491077003807 H-loop/switch region; other site 491077003808 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491077003809 dimer interface [polypeptide binding]; other site 491077003810 conserved gate region; other site 491077003811 ABC-ATPase subunit interface; other site 491077003812 methionine sulfoxide reductase B; Provisional; Region: PRK00222 491077003813 SelR domain; Region: SelR; pfam01641 491077003814 potential frameshift: common BLAST hit: gi|148543426|ref|YP_001270796.1| chloride channel, core 491077003815 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-linked...; Region: EriC; cd01031 491077003816 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 491077003817 Cl- selectivity filter; other site 491077003818 Cl- binding residues [ion binding]; other site 491077003819 pore gating glutamate residue; other site 491077003820 H+/Cl- coupling transport residue; other site 491077003821 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003822 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077003823 Integrase core domain; Region: rve; pfam00665 491077003824 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 491077003825 metal binding site [ion binding]; metal-binding site 491077003826 dimer interface [polypeptide binding]; other site 491077003827 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491077003828 ABC-ATPase subunit interface; other site 491077003829 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 491077003830 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 491077003831 Walker A/P-loop; other site 491077003832 ATP binding site [chemical binding]; other site 491077003833 Q-loop/lid; other site 491077003834 ABC transporter signature motif; other site 491077003835 Walker B; other site 491077003836 D-loop; other site 491077003837 H-loop/switch region; other site 491077003838 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 491077003839 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 491077003840 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 491077003841 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 491077003842 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077003843 putative active site [active] 491077003844 putative NTP binding site [chemical binding]; other site 491077003845 putative nucleic acid binding site [nucleotide binding]; other site 491077003846 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077003847 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 491077003848 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491077003849 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 491077003850 NAD binding site [chemical binding]; other site 491077003851 dimer interface [polypeptide binding]; other site 491077003852 substrate binding site [chemical binding]; other site 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 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491077003855 putative substrate translocation pore; other site 491077003856 FMN-binding domain; Region: FMN_bind; pfam04205 491077003857 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 491077003858 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 491077003859 minor groove reading motif; other site 491077003860 helix-hairpin-helix signature motif; other site 491077003861 substrate binding pocket [chemical binding]; other site 491077003862 active site 491077003863 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 491077003864 amino acid transporter; Region: 2A0306; TIGR00909 491077003865 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 491077003866 4-aminobutyrate aminotransferase; Provisional; Region: PRK08593 491077003867 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 491077003868 inhibitor-cofactor binding pocket; inhibition site 491077003869 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077003870 catalytic residue [active] 491077003871 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 491077003872 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 491077003873 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 491077003874 Part of AAA domain; Region: AAA_19; pfam13245 491077003875 Family description; Region: UvrD_C_2; pfam13538 491077003876 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 491077003877 active site 491077003878 multimer interface [polypeptide binding]; other site 491077003879 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 491077003880 DNA methylase; Region: N6_N4_Mtase; cl17433 491077003881 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 491077003882 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 491077003883 active site 491077003884 HIGH motif; other site 491077003885 dimer interface [polypeptide binding]; other site 491077003886 KMSKS motif; other site 491077003887 exopolyphosphatase; Region: exo_poly_only; TIGR03706 491077003888 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 491077003889 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 491077003890 homodimer interface [polypeptide binding]; other site 491077003891 catalytic residues [active] 491077003892 NAD binding site [chemical binding]; other site 491077003893 substrate binding pocket [chemical binding]; other site 491077003894 flexible flap; other site 491077003895 NAD-dependent deacetylase; Provisional; Region: PRK00481 491077003896 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 491077003897 Protein of unknown function DUF72; Region: DUF72; pfam01904 491077003898 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 491077003899 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 491077003900 HIGH motif; other site 491077003901 active site 491077003902 KMSKS motif; other site 491077003903 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 491077003904 tRNA binding surface [nucleotide binding]; other site 491077003905 anticodon binding site; other site 491077003906 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 491077003907 dimer interface [polypeptide binding]; other site 491077003908 putative tRNA-binding site [nucleotide binding]; other site 491077003909 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 491077003910 active site 491077003911 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 491077003912 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 low...; Region: TOPRIM_RNase_M5_like; cd01027 491077003913 putative active site [active] 491077003914 putative metal binding site [ion binding]; other site 491077003915 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 491077003916 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 491077003917 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 491077003918 S-adenosylmethionine binding site [chemical binding]; other site 491077003919 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 491077003920 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 491077003921 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 491077003922 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 491077003923 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077003924 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077003925 Integrase core domain; Region: rve; pfam00665 491077003926 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 491077003927 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 491077003928 metal binding site [ion binding]; metal-binding site 491077003929 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 491077003930 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 491077003931 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 491077003932 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 491077003933 pur operon repressor; Provisional; Region: PRK09213 491077003934 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 491077003935 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491077003936 active site 491077003937 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 491077003938 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 491077003939 Substrate binding site; other site 491077003940 Mg++ binding site; other site 491077003941 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 491077003942 active site 491077003943 substrate binding site [chemical binding]; other site 491077003944 CoA binding site [chemical binding]; other site 491077003945 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 491077003946 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 491077003947 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491077003948 active site 491077003949 sugar phosphate phosphatase; Provisional; Region: PRK10513 491077003950 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 491077003951 active site 491077003952 motif I; other site 491077003953 motif II; other site 491077003954 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 491077003955 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 491077003956 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 491077003957 Zn2+ binding site [ion binding]; other site 491077003958 Mg2+ binding site [ion binding]; other site 491077003959 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 491077003960 potential frameshift: common BLAST hit: gi|184154171|ref|YP_001842512.1| transposase 491077003961 Transposase IS200 like; Region: Y1_Tnp; pfam01797 491077003962 Transposase IS200 like; Region: Y1_Tnp; pfam01797 491077003963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077003964 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077003965 Probable transposase; Region: OrfB_IS605; pfam01385 491077003966 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 491077003967 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 491077003968 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 491077003969 CTP synthetase; Validated; Region: pyrG; PRK05380 491077003970 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 491077003971 Catalytic site [active] 491077003972 active site 491077003973 UTP binding site [chemical binding]; other site 491077003974 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 491077003975 active site 491077003976 putative oxyanion hole; other site 491077003977 catalytic triad [active] 491077003978 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 491077003979 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 491077003980 hinge; other site 491077003981 active site 491077003982 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 491077003983 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 491077003984 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 491077003985 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 491077003986 active site 491077003987 catalytic site [active] 491077003988 phosphoenolpyruvate synthase; Validated; Region: PRK06464 491077003989 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 491077003990 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 491077003991 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 491077003992 Right handed beta helix region; Region: Beta_helix; pfam13229 491077003993 Right handed beta helix region; Region: Beta_helix; pfam13229 491077003994 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 491077003995 triosephosphate isomerase; Provisional; Region: PRK14565 491077003996 substrate binding site [chemical binding]; other site 491077003997 dimer interface [polypeptide binding]; other site 491077003998 catalytic triad [active] 491077003999 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 1; Region: TBP_aldolase_IIB; cd00947 491077004000 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 491077004001 intersubunit interface [polypeptide binding]; other site 491077004002 active site 491077004003 zinc binding site [ion binding]; other site 491077004004 Na+ binding site [ion binding]; other site 491077004005 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 491077004006 catalytic core [active] 491077004007 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 491077004008 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 491077004009 Low molecular weight phosphatase family; Region: LMWPc; cd00115 491077004010 active site 491077004011 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 491077004012 heat shock protein HtpX; Provisional; Region: PRK04897 491077004013 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 491077004014 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 491077004015 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491077004016 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 491077004017 helicase 45; Provisional; Region: PTZ00424 491077004018 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 491077004019 ATP binding site [chemical binding]; other site 491077004020 Mg++ binding site [ion binding]; other site 491077004021 motif III; other site 491077004022 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 491077004023 nucleotide binding region [chemical binding]; other site 491077004024 ATP-binding site [chemical binding]; other site 491077004025 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004026 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077004027 Integrase core domain; Region: rve; pfam00665 491077004028 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 491077004029 Glutaminase; Region: Glutaminase; cl00907 491077004030 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 491077004031 DltD N-terminal region; Region: DltD_N; pfam04915 491077004032 DltD central region; Region: DltD_M; pfam04918 491077004033 DltD C-terminal region; Region: DltD_C; pfam04914 491077004034 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 491077004035 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 491077004036 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 491077004037 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 491077004038 acyl-activating enzyme (AAE) consensus motif; other site 491077004039 AMP binding site [chemical binding]; other site 491077004040 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 491077004041 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 491077004042 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 491077004043 alanine racemase; Reviewed; Region: alr; PRK00053 491077004044 active site 491077004045 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 491077004046 dimer interface [polypeptide binding]; other site 491077004047 substrate binding site [chemical binding]; other site 491077004048 catalytic residues [active] 491077004049 PemK-like protein; Region: PemK; pfam02452 491077004050 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 491077004051 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 491077004052 Na binding site [ion binding]; other site 491077004053 cytosine deaminase; Provisional; Region: PRK09230 491077004054 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 fungi; Region: Bact_CD; cd01293 491077004055 active site 491077004056 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 491077004057 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 491077004058 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 491077004059 putative active site [active] 491077004060 catalytic residue [active] 491077004061 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 491077004062 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 491077004063 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 491077004064 ATP binding site [chemical binding]; other site 491077004065 putative Mg++ binding site [ion binding]; other site 491077004066 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 491077004067 nucleotide binding region [chemical binding]; other site 491077004068 ATP-binding site [chemical binding]; other site 491077004069 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 491077004070 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 491077004071 RNA binding surface [nucleotide binding]; other site 491077004072 Septum formation initiator; Region: DivIC; cl17659 491077004073 hypothetical protein; Provisional; Region: PRK08582 491077004074 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...; Region: S1_RPS1_repeat_hs4; cd05692 491077004075 RNA binding site [nucleotide binding]; other site 491077004076 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 491077004077 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 491077004078 Ligand Binding Site [chemical binding]; other site 491077004079 TilS substrate C-terminal domain; Region: TilS_C; smart00977 491077004080 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491077004081 active site 491077004082 FtsH Extracellular; Region: FtsH_ext; pfam06480 491077004083 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 491077004084 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077004085 Walker A motif; other site 491077004086 ATP binding site [chemical binding]; other site 491077004087 Walker B motif; other site 491077004088 arginine finger; other site 491077004089 Peptidase family M41; Region: Peptidase_M41; pfam01434 491077004090 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 491077004091 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 491077004092 dimerization interface [polypeptide binding]; other site 491077004093 domain crossover interface; other site 491077004094 redox-dependent activation switch; other site 491077004095 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 491077004096 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 491077004097 FMN binding site [chemical binding]; other site 491077004098 active site 491077004099 catalytic residues [active] 491077004100 substrate binding site [chemical binding]; other site 491077004101 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 491077004102 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 491077004103 dimer interface [polypeptide binding]; other site 491077004104 putative anticodon binding site; other site 491077004105 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 491077004106 motif 1; other site 491077004107 active site 491077004108 motif 2; other site 491077004109 motif 3; other site 491077004110 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077004111 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 491077004112 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 491077004113 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 491077004114 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 491077004115 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077004116 putative active site [active] 491077004117 putative NTP binding site [chemical binding]; other site 491077004118 putative nucleic acid binding site [nucleotide binding]; other site 491077004119 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077004120 Helix-turn-helix domain; Region: HTH_28; pfam13518 491077004121 HTH-like domain; Region: HTH_21; pfam13276 491077004122 Integrase core domain; Region: rve; pfam00665 491077004123 Replication regulatory protein RepB; Region: RepB-RCR_reg; cl11673 491077004124 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004125 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077004126 Integrase core domain; Region: rve; pfam00665 491077004127 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077004128 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 491077004129 catalytic residues [active] 491077004130 catalytic nucleophile [active] 491077004131 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077004132 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 491077004133 catalytic residues [active] 491077004134 catalytic nucleophile [active] 491077004135 Presynaptic Site I dimer interface [polypeptide binding]; other site 491077004136 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 491077004137 Synaptic Flat tetramer interface [polypeptide binding]; other site 491077004138 Synaptic Site I dimer interface [polypeptide binding]; other site 491077004139 DNA binding site [nucleotide binding] 491077004140 Helix-turn-helix domain; Region: HTH_36; pfam13730 491077004141 Phage associated DNA primase [General function prediction only]; Region: COG3378 491077004142 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 491077004143 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 491077004144 Protein of unknown function (DUF507); Region: DUF507; cl01112 491077004145 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 491077004146 Int/Topo IB signature motif; other site 491077004147 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 491077004148 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077004149 putative active site [active] 491077004150 putative NTP binding site [chemical binding]; other site 491077004151 putative nucleic acid binding site [nucleotide binding]; other site 491077004152 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077004153 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 491077004154 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077004155 Walker A motif; other site 491077004156 ATP binding site [chemical binding]; other site 491077004157 Walker B motif; other site 491077004158 arginine finger; other site 491077004159 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 491077004160 Integrase core domain; Region: rve; pfam00665 491077004161 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 491077004162 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 491077004163 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 491077004164 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 491077004165 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 491077004166 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 491077004167 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 491077004168 non-specific DNA binding site [nucleotide binding]; other site 491077004169 salt bridge; other site 491077004170 sequence-specific DNA binding site [nucleotide binding]; other site 491077004171 Bacterial lipoprotein; Region: DUF3642; pfam12182 491077004172 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 491077004173 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 491077004174 POT family; Region: PTR2; cl17359 491077004175 putative phosphoesterase; Region: acc_ester; TIGR03729 491077004176 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 491077004177 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491077004178 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 491077004179 putative substrate translocation pore; other site 491077004180 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 491077004181 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 491077004182 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 491077004183 TrkA-C domain; Region: TrkA_C; pfam02080 491077004184 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 491077004185 aspartate racemase; Region: asp_race; TIGR00035 491077004186 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 491077004187 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 491077004188 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491077004189 DNA-binding site [nucleotide binding]; DNA binding site 491077004190 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 491077004191 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 491077004192 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 491077004193 active site 491077004194 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 491077004195 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 491077004196 homodimer interface [polypeptide binding]; other site 491077004197 NAD binding pocket [chemical binding]; other site 491077004198 ATP binding pocket [chemical binding]; other site 491077004199 Mg binding site [ion binding]; other site 491077004200 active-site loop [active] 491077004201 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 491077004202 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 491077004203 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 491077004204 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 491077004205 RNA binding site [nucleotide binding]; other site 491077004206 hypothetical protein; Provisional; Region: PRK04351 491077004207 SprT homologues; Region: SprT; cl01182 491077004208 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 491077004209 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077004210 putative active site [active] 491077004211 putative NTP binding site [chemical binding]; other site 491077004212 putative nucleic acid binding site [nucleotide binding]; other site 491077004213 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077004214 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 491077004215 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 491077004216 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 491077004217 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 491077004218 Predicted integral membrane protein [Function unknown]; Region: COG5617 491077004219 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 491077004220 catalytic core [active] 491077004221 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 491077004222 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 491077004223 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 491077004224 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 491077004225 homodimer interface [polypeptide binding]; other site 491077004226 substrate-cofactor binding pocket; other site 491077004227 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077004228 catalytic residue [active] 491077004229 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491077004230 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491077004231 dimer interface [polypeptide binding]; other site 491077004232 conserved gate region; other site 491077004233 putative PBP binding loops; other site 491077004234 ABC-ATPase subunit interface; other site 491077004235 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491077004236 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491077004237 Walker A/P-loop; other site 491077004238 ATP binding site [chemical binding]; other site 491077004239 Q-loop/lid; other site 491077004240 ABC transporter signature motif; other site 491077004241 Walker B; other site 491077004242 D-loop; other site 491077004243 H-loop/switch region; other site 491077004244 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 491077004245 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 491077004246 substrate binding pocket [chemical binding]; other site 491077004247 membrane-bound complex binding site; other site 491077004248 hinge residues; other site 491077004249 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 is...; Region: Peptidase_C1B; cd00585 491077004250 trimer interface [polypeptide binding]; other site 491077004251 active site 491077004252 G bulge; other site 491077004253 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 491077004254 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491077004255 active site 491077004256 dimer interface [polypeptide binding]; other site 491077004257 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491077004258 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 491077004259 Coenzyme A binding pocket [chemical binding]; other site 491077004260 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 491077004261 trimer interface [polypeptide binding]; other site 491077004262 active site 491077004263 DNA repair protein RadA; Provisional; Region: PRK11823 491077004264 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 491077004265 Walker A motif/ATP binding site; other site 491077004266 ATP binding site [chemical binding]; other site 491077004267 Walker B motif; other site 491077004268 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 491077004269 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 491077004270 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 491077004271 putative active site [active] 491077004272 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 491077004273 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 491077004274 active site 491077004275 HIGH motif; other site 491077004276 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 491077004277 KMSKS motif; other site 491077004278 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 491077004279 tRNA binding surface [nucleotide binding]; other site 491077004280 anticodon binding site; other site 491077004281 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 491077004282 active site 491077004283 metal binding site [ion binding]; metal-binding site 491077004284 dimerization interface [polypeptide binding]; other site 491077004285 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 491077004286 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 491077004287 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 491077004288 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 491077004289 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 491077004290 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 491077004291 putative homodimer interface [polypeptide binding]; other site 491077004292 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 491077004293 heterodimer interface [polypeptide binding]; other site 491077004294 homodimer interface [polypeptide binding]; other site 491077004295 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 491077004296 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 491077004297 23S rRNA interface [nucleotide binding]; other site 491077004298 L7/L12 interface [polypeptide binding]; other site 491077004299 putative thiostrepton binding site; other site 491077004300 L25 interface [polypeptide binding]; other site 491077004301 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 491077004302 mRNA/rRNA interface [nucleotide binding]; other site 491077004303 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 491077004304 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 491077004305 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077004306 homodimer interface [polypeptide binding]; other site 491077004307 catalytic residue [active] 491077004308 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004309 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077004310 Integrase core domain; Region: rve; pfam00665 491077004311 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 491077004312 homodimer interface [polypeptide binding]; other site 491077004313 active site 491077004314 Ribosomal protein L10 leader; HMPREF0538_nc20037 491077004315 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 491077004316 23S rRNA interface [nucleotide binding]; other site 491077004317 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 491077004318 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 491077004319 peripheral dimer interface [polypeptide binding]; other site 491077004320 core dimer interface [polypeptide binding]; other site 491077004321 L10 interface [polypeptide binding]; other site 491077004322 L11 interface [polypeptide binding]; other site 491077004323 putative EF-Tu interaction site [polypeptide binding]; other site 491077004324 putative EF-G interaction site [polypeptide binding]; other site 491077004325 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 491077004326 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 491077004327 Predicted transcriptional regulators [Transcription]; Region: COG1695 491077004328 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 491077004329 Predicted membrane protein [Function unknown]; Region: COG4709 491077004330 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 491077004331 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 491077004332 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 491077004333 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 491077004334 putative catalytic cysteine [active] 491077004335 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 491077004336 putative active site [active] 491077004337 metal binding site [ion binding]; metal-binding site 491077004338 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 491077004339 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 491077004340 dimer interface [polypeptide binding]; other site 491077004341 putative radical transfer pathway; other site 491077004342 diiron center [ion binding]; other site 491077004343 tyrosyl radical; other site 491077004344 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 491077004345 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 491077004346 Class I ribonucleotide reductase; Region: RNR_I; cd01679 491077004347 active site 491077004348 dimer interface [polypeptide binding]; other site 491077004349 catalytic residues [active] 491077004350 effector binding site; other site 491077004351 R2 peptide binding site; other site 491077004352 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 491077004353 catalytic residues [active] 491077004354 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 491077004355 nucleoside/Zn binding site; other site 491077004356 dimer interface [polypeptide binding]; other site 491077004357 catalytic motif [active] 491077004358 Transposase IS200 like; Region: Y1_Tnp; pfam01797 491077004359 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077004360 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077004361 Probable transposase; Region: OrfB_IS605; pfam01385 491077004362 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 491077004363 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 491077004364 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077004365 Walker A motif; other site 491077004366 ATP binding site [chemical binding]; other site 491077004367 Walker B motif; other site 491077004368 arginine finger; other site 491077004369 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 491077004370 hypothetical protein; Validated; Region: PRK00153 491077004371 recombination protein RecR; Reviewed; Region: recR; PRK00076 491077004372 RecR protein; Region: RecR; pfam02132 491077004373 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 491077004374 putative active site [active] 491077004375 putative metal-binding site [ion binding]; other site 491077004376 tetramer interface [polypeptide binding]; other site 491077004377 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 491077004378 thymidylate kinase; Validated; Region: tmk; PRK00698 491077004379 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 491077004380 TMP-binding site; other site 491077004381 ATP-binding site [chemical binding]; other site 491077004382 Protein of unknown function (DUF970); Region: DUF970; pfam06153 491077004383 DNA polymerase III subunit delta'; Validated; Region: PRK08058 491077004384 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077004385 Walker A motif; other site 491077004386 ATP binding site [chemical binding]; other site 491077004387 Walker B motif; other site 491077004388 Protein of unknown function (DUF972); Region: DUF972; pfam06156 491077004389 Predicted methyltransferases [General function prediction only]; Region: COG0313 491077004390 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 491077004391 putative SAM binding site [chemical binding]; other site 491077004392 putative homodimer interface [polypeptide binding]; other site 491077004393 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 491077004394 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 491077004395 active site 491077004396 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 491077004397 active site 491077004398 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 491077004399 polyphosphate kinase; Provisional; Region: PRK05443 491077004400 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 491077004401 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 491077004402 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 491077004403 putative domain interface [polypeptide binding]; other site 491077004404 putative active site [active] 491077004405 catalytic site [active] 491077004406 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 491077004407 putative domain interface [polypeptide binding]; other site 491077004408 putative active site [active] 491077004409 catalytic site [active] 491077004410 exopolyphosphatase; Region: exo_poly_only; TIGR03706 491077004411 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 491077004412 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 491077004413 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 491077004414 NAD binding site [chemical binding]; other site 491077004415 homodimer interface [polypeptide binding]; other site 491077004416 active site 491077004417 substrate binding site [chemical binding]; other site 491077004418 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 491077004419 Glycoprotease family; Region: Peptidase_M22; pfam00814 491077004420 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 491077004421 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491077004422 Coenzyme A binding pocket [chemical binding]; other site 491077004423 UGMP family protein; Validated; Region: PRK09604 491077004424 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 491077004425 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 491077004426 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 491077004427 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 491077004428 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 491077004429 putative catalytic cysteine [active] 491077004430 gamma-glutamyl kinase; Provisional; Region: PRK05429 491077004431 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 491077004432 nucleotide binding site [chemical binding]; other site 491077004433 homotetrameric interface [polypeptide binding]; other site 491077004434 putative phosphate binding site [ion binding]; other site 491077004435 putative allosteric binding site; other site 491077004436 T-box leader; HMPREF0538_nc20039 491077004437 Predicted amidohydrolase [General function prediction only]; Region: COG0388 491077004438 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 491077004439 putative active site [active] 491077004440 catalytic triad [active] 491077004441 putative dimer interface [polypeptide binding]; other site 491077004442 transaminase; Reviewed; Region: PRK08068 491077004443 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 491077004444 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077004445 homodimer interface [polypeptide binding]; other site 491077004446 catalytic residue [active] 491077004447 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 491077004448 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 491077004449 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 491077004450 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 491077004451 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491077004452 Walker A/P-loop; other site 491077004453 ATP binding site [chemical binding]; other site 491077004454 Q-loop/lid; other site 491077004455 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491077004456 ABC transporter signature motif; other site 491077004457 Walker B; other site 491077004458 D-loop; other site 491077004459 ABC transporter; Region: ABC_tran_2; pfam12848 491077004460 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491077004461 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 491077004462 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 491077004463 CoA binding domain; Region: CoA_binding; pfam02629 491077004464 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 491077004465 oligomerisation interface [polypeptide binding]; other site 491077004466 mobile loop; other site 491077004467 roof hairpin; other site 491077004468 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 491077004469 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 491077004470 ring oligomerisation interface [polypeptide binding]; other site 491077004471 ATP/Mg binding site [chemical binding]; other site 491077004472 stacking interactions; other site 491077004473 hinge regions; other site 491077004474 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 491077004475 putative deacylase active site [active] 491077004476 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 491077004477 Amino acid permease; Region: AA_permease_2; pfam13520 491077004478 K+ potassium transporter; Region: K_trans; cl15781 491077004479 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 491077004480 MarR family; Region: MarR_2; pfam12802 491077004481 potential frameshift: common BLAST hit: gi|148543596|ref|YP_001270966.1| major facilitator transporter 491077004482 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 491077004483 putative substrate translocation pore; other site 491077004484 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077004485 Integrase core domain; Region: rve; pfam00665 491077004486 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004487 Uncharacterized conserved protein [Function unknown]; Region: COG1739 491077004488 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 491077004489 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 491077004490 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 491077004491 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 491077004492 ATP binding site [chemical binding]; other site 491077004493 putative Mg++ binding site [ion binding]; other site 491077004494 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 491077004495 nucleotide binding region [chemical binding]; other site 491077004496 ATP-binding site [chemical binding]; other site 491077004497 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 491077004498 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491077004499 active site 491077004500 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 491077004501 30S subunit binding site; other site 491077004502 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12906 491077004503 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 491077004504 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 491077004505 nucleotide binding region [chemical binding]; other site 491077004506 ATP-binding site [chemical binding]; other site 491077004507 peptide chain release factor 2; Provisional; Region: PRK05589 491077004508 This domain is found in peptide chain release factors; Region: PCRF; smart00937 491077004509 RF-1 domain; Region: RF-1; pfam00472 491077004510 PspC domain; Region: PspC; pfam04024 491077004511 Membrane protein of unknown function; Region: DUF360; pfam04020 491077004512 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 491077004513 HPr kinase/phosphorylase; Provisional; Region: PRK05428 491077004514 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 491077004515 Hpr binding site; other site 491077004516 active site 491077004517 homohexamer subunit interaction site [polypeptide binding]; other site 491077004518 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 491077004519 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 491077004520 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 491077004521 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 491077004522 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 491077004523 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 491077004524 active site 491077004525 tetramer interface; other site 491077004526 Uncharacterized conserved protein [Function unknown]; Region: COG1556 491077004527 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 491077004528 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 491077004529 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 491077004530 Cysteine-rich domain; Region: CCG; pfam02754 491077004531 Cysteine-rich domain; Region: CCG; pfam02754 491077004532 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 491077004533 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491077004534 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491077004535 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 491077004536 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 491077004537 metal binding site [ion binding]; metal-binding site 491077004538 dimer interface [polypeptide binding]; other site 491077004539 T-box leader; HMPREF0538_nc20040 491077004540 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491077004541 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 491077004542 substrate binding pocket [chemical binding]; other site 491077004543 membrane-bound complex binding site; other site 491077004544 hinge residues; other site 491077004545 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 491077004546 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 491077004547 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 491077004548 active site 491077004549 substrate binding site [chemical binding]; other site 491077004550 metal binding site [ion binding]; metal-binding site 491077004551 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077004552 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077004553 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 491077004554 Zn2+ binding site [ion binding]; other site 491077004555 Mg2+ binding site [ion binding]; other site 491077004556 excinuclease ABC subunit B; Provisional; Region: PRK05298 491077004557 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 491077004558 ATP binding site [chemical binding]; other site 491077004559 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 491077004560 nucleotide binding region [chemical binding]; other site 491077004561 ATP-binding site [chemical binding]; other site 491077004562 Ultra-violet resistance protein B; Region: UvrB; pfam12344 491077004563 UvrB/uvrC motif; Region: UVR; pfam02151 491077004564 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 491077004565 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 491077004566 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 491077004567 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 491077004568 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 491077004569 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 491077004570 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 491077004571 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 491077004572 phosphate binding site [ion binding]; other site 491077004573 putative substrate binding pocket [chemical binding]; other site 491077004574 dimer interface [polypeptide binding]; other site 491077004575 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 491077004576 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 491077004577 potential frameshift: common BLAST hit: gi|184156043|ref|YP_001844383.1| transposase 491077004578 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004579 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004580 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 491077004581 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 491077004582 oligomer interface [polypeptide binding]; other site 491077004583 active site residues [active] 491077004584 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 491077004585 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 491077004586 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 491077004587 Phosphoglycerate kinase; Region: PGK; pfam00162 491077004588 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 491077004589 substrate binding site [chemical binding]; other site 491077004590 hinge regions; other site 491077004591 ADP binding site [chemical binding]; other site 491077004592 catalytic site [active] 491077004593 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 491077004594 triosephosphate isomerase; Provisional; Region: PRK14565 491077004595 substrate binding site [chemical binding]; other site 491077004596 dimer interface [polypeptide binding]; other site 491077004597 catalytic triad [active] 491077004598 enolase; Provisional; Region: eno; PRK00077 491077004599 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 491077004600 dimer interface [polypeptide binding]; other site 491077004601 metal binding site [ion binding]; metal-binding site 491077004602 substrate binding pocket [chemical binding]; other site 491077004603 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 491077004604 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 491077004605 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-linked...; Region: EriC; cd01031 491077004606 Cl- selectivity filter; other site 491077004607 Cl- binding residues [ion binding]; other site 491077004608 pore gating glutamate residue; other site 491077004609 dimer interface [polypeptide binding]; other site 491077004610 H+/Cl- coupling transport residue; other site 491077004611 TrkA-C domain; Region: TrkA_C; pfam02080 491077004612 Preprotein translocase SecG subunit; Region: SecG; pfam03840 491077004613 Esterase/lipase [General function prediction only]; Region: COG1647 491077004614 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 491077004615 ribonuclease R; Region: RNase_R; TIGR02063 491077004616 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 491077004617 RNB domain; Region: RNB; pfam00773 491077004618 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...; Region: S1_RNase_R; cd04471 491077004619 RNA binding site [nucleotide binding]; other site 491077004620 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 491077004621 SmpB-tmRNA interface; other site 491077004622 Tubby C 2; Region: Tub_2; cl02043 491077004623 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 491077004624 ligand binding site [chemical binding]; other site 491077004625 active site 491077004626 UGI interface [polypeptide binding]; other site 491077004627 catalytic site [active] 491077004628 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 491077004629 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 491077004630 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 491077004631 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491077004632 Coenzyme A binding pocket [chemical binding]; other site 491077004633 PAS domain; Region: PAS_10; pfam13596 491077004634 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 491077004635 active site 491077004636 catalytic site [active] 491077004637 substrate binding site [chemical binding]; other site 491077004638 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004639 Integrase core domain; Region: rve; pfam00665 491077004640 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 491077004641 FAD binding domain; Region: FAD_binding_4; pfam01565 491077004642 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 491077004643 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 491077004644 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 nucleotides...; Region: ribokinase; cd01174 491077004645 substrate binding site [chemical binding]; other site 491077004646 dimer interface [polypeptide binding]; other site 491077004647 ATP binding site [chemical binding]; other site 491077004648 D-ribose pyranase; Provisional; Region: PRK11797 491077004649 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 491077004650 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 491077004651 putative substrate translocation pore; other site 491077004652 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 491077004653 Uncharacterized conserved protein [Function unknown]; Region: COG1624 491077004654 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 491077004655 YbbR-like protein; Region: YbbR; pfam07949 491077004656 YbbR-like protein; Region: YbbR; pfam07949 491077004657 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 491077004658 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 491077004659 active site 491077004660 substrate binding site [chemical binding]; other site 491077004661 metal binding site [ion binding]; metal-binding site 491077004662 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 491077004663 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 491077004664 glutaminase active site [active] 491077004665 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 491077004666 dimer interface [polypeptide binding]; other site 491077004667 active site 491077004668 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 491077004669 dimer interface [polypeptide binding]; other site 491077004670 active site 491077004671 Acyltransferase family; Region: Acyl_transf_3; pfam01757 491077004672 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 491077004673 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 491077004674 catalytic triad [active] 491077004675 catalytic triad [active] 491077004676 oxyanion hole [active] 491077004677 MarR family; Region: MarR_2; pfam12802 491077004678 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 491077004679 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 491077004680 active site 491077004681 motif I; other site 491077004682 motif II; other site 491077004683 cell division suppressor protein YneA; Provisional; Region: PRK14125 491077004684 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 491077004685 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491077004686 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 491077004687 active site 491077004688 phosphorylation site [posttranslational modification] 491077004689 intermolecular recognition site; other site 491077004690 dimerization interface [polypeptide binding]; other site 491077004691 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 491077004692 DNA binding site [nucleotide binding] 491077004693 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 491077004694 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 491077004695 dimerization interface [polypeptide binding]; other site 491077004696 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 491077004697 dimer interface [polypeptide binding]; other site 491077004698 phosphorylation site [posttranslational modification] 491077004699 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 491077004700 ATP binding site [chemical binding]; other site 491077004701 Mg2+ binding site [ion binding]; other site 491077004702 G-X-G motif; other site 491077004703 Sugar transport protein; Region: Sugar_transport; pfam06800 491077004704 maltose O-acetyltransferase; Provisional; Region: PRK10092 491077004705 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 491077004706 active site 491077004707 substrate binding site [chemical binding]; other site 491077004708 trimer interface [polypeptide binding]; other site 491077004709 CoA binding site [chemical binding]; other site 491077004710 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 491077004711 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 491077004712 active site 491077004713 dimer interface [polypeptide binding]; other site 491077004714 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 491077004715 dimer interface [polypeptide binding]; other site 491077004716 active site 491077004717 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 491077004718 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004719 Integrase core domain; Region: rve; pfam00665 491077004720 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 491077004721 nucleotide binding site [chemical binding]; other site 491077004722 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 491077004723 Response regulator receiver domain; Region: Response_reg; pfam00072 491077004724 active site 491077004725 phosphorylation site [posttranslational modification] 491077004726 intermolecular recognition site; other site 491077004727 dimerization interface [polypeptide binding]; other site 491077004728 YcbB domain; Region: YcbB; pfam08664 491077004729 ornithine carbamoyltransferase; Provisional; Region: PRK04284 491077004730 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 491077004731 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 491077004732 carbamate kinase; Reviewed; Region: PRK12686 491077004733 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 491077004734 putative substrate binding site [chemical binding]; other site 491077004735 nucleotide binding site [chemical binding]; other site 491077004736 nucleotide binding site [chemical binding]; other site 491077004737 homodimer interface [polypeptide binding]; other site 491077004738 EamA-like transporter family; Region: EamA; pfam00892 491077004739 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 491077004740 EamA-like transporter family; Region: EamA; pfam00892 491077004741 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 491077004742 active site 491077004743 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 491077004744 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 491077004745 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 491077004746 Soluble P-type ATPase [General function prediction only]; Region: COG4087 491077004747 potential frameshift: common BLAST hit: gi|184153083|ref|YP_001841424.1| Na-H antiporter 491077004748 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 491077004749 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077004750 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077004751 Beta-lactamase; Region: Beta-lactamase; pfam00144 491077004752 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 491077004753 arginine deiminase; Provisional; Region: PRK01388 491077004754 Arginine repressor [Transcription]; Region: ArgR; COG1438 491077004755 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 491077004756 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 491077004757 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 491077004758 histidine-histamine antiporter; Region: his_histam_anti; TIGR04298 491077004759 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004760 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077004761 Integrase core domain; Region: rve; pfam00665 491077004762 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 491077004763 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077004764 putative active site [active] 491077004765 putative NTP binding site [chemical binding]; other site 491077004766 putative nucleic acid binding site [nucleotide binding]; other site 491077004767 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077004768 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 491077004769 catalytic triad [active] 491077004770 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 491077004771 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491077004772 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 491077004773 thymidine kinase; Provisional; Region: PRK04296 491077004774 peptide chain release factor 1; Validated; Region: prfA; PRK00591 491077004775 This domain is found in peptide chain release factors; Region: PCRF; smart00937 491077004776 RF-1 domain; Region: RF-1; pfam00472 491077004777 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 491077004778 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 491077004779 S-adenosylmethionine binding site [chemical binding]; other site 491077004780 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 491077004781 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 491077004782 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 491077004783 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 491077004784 dimer interface [polypeptide binding]; other site 491077004785 active site 491077004786 glycine-pyridoxal phosphate binding site [chemical binding]; other site 491077004787 folate binding site [chemical binding]; other site 491077004788 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491077004789 active site 491077004790 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 491077004791 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 491077004792 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 491077004793 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 491077004794 YibE/F-like protein; Region: YibE_F; pfam07907 491077004795 YibE/F-like protein; Region: YibE_F; pfam07907 491077004796 uracil transporter; Provisional; Region: PRK10720 491077004797 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 491077004798 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 491077004799 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 491077004800 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 491077004801 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 491077004802 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 491077004803 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 491077004804 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 491077004805 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 491077004806 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 491077004807 beta subunit interaction interface [polypeptide binding]; other site 491077004808 Walker A motif; other site 491077004809 ATP binding site [chemical binding]; other site 491077004810 Walker B motif; other site 491077004811 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 491077004812 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 491077004813 core domain interface [polypeptide binding]; other site 491077004814 delta subunit interface [polypeptide binding]; other site 491077004815 epsilon subunit interface [polypeptide binding]; other site 491077004816 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 491077004817 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 491077004818 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 491077004819 alpha subunit interaction interface [polypeptide binding]; other site 491077004820 Walker A motif; other site 491077004821 ATP binding site [chemical binding]; other site 491077004822 Walker B motif; other site 491077004823 inhibitor binding site; inhibition site 491077004824 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 491077004825 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 491077004826 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 491077004827 gamma subunit interface [polypeptide binding]; other site 491077004828 epsilon subunit interface [polypeptide binding]; other site 491077004829 LBP interface [polypeptide binding]; other site 491077004830 Protein of unknown function (DUF1146); Region: DUF1146; pfam06612 491077004831 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 491077004832 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 491077004833 hinge; other site 491077004834 active site 491077004835 rod shape-determining protein MreB; Provisional; Region: PRK13930 491077004836 MreB and similar proteins; Region: MreB_like; cd10225 491077004837 nucleotide binding site [chemical binding]; other site 491077004838 Mg binding site [ion binding]; other site 491077004839 putative protofilament interaction site [polypeptide binding]; other site 491077004840 RodZ interaction site [polypeptide binding]; other site 491077004841 Haemolytic domain; Region: Haemolytic; cl00506 491077004842 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 491077004843 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 491077004844 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 491077004845 lipoyl attachment site [posttranslational modification]; other site 491077004846 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077004847 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077004848 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 491077004849 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077004850 putative active site [active] 491077004851 putative NTP binding site [chemical binding]; other site 491077004852 putative nucleic acid binding site [nucleotide binding]; other site 491077004853 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077004854 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004855 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077004856 Integrase core domain; Region: rve; pfam00665 491077004857 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004858 Integrase core domain; Region: rve; pfam00665 491077004859 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 491077004860 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 491077004861 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 491077004862 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491077004863 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 491077004864 non-specific DNA binding site [nucleotide binding]; other site 491077004865 salt bridge; other site 491077004866 sequence-specific DNA binding site [nucleotide binding]; other site 491077004867 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 491077004868 binding surface 491077004869 TPR motif; other site 491077004870 Tetratricopeptide repeat; Region: TPR_12; pfam13424 491077004871 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 491077004872 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 491077004873 putative substrate translocation pore; other site 491077004874 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 491077004875 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 491077004876 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 491077004877 putative N- and C-terminal domain interface [polypeptide binding]; other site 491077004878 putative active site [active] 491077004879 MgATP binding site [chemical binding]; other site 491077004880 catalytic site [active] 491077004881 metal binding site [ion binding]; metal-binding site 491077004882 putative carbohydrate binding site [chemical binding]; other site 491077004883 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 491077004884 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 491077004885 intersubunit interface [polypeptide binding]; other site 491077004886 active site 491077004887 Zn2+ binding site [ion binding]; other site 491077004888 L-arabinose isomerase; Provisional; Region: PRK02929 491077004889 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 glucose...; Region: L-fuc_L-ara-isomerases; cl00947 491077004890 hexamer (dimer of trimers) interface [polypeptide binding]; other site 491077004891 substrate binding site [chemical binding]; other site 491077004892 trimer interface [polypeptide binding]; other site 491077004893 Mn binding site [ion binding]; other site 491077004894 potential frameshift: common BLAST hit: gi|148543718|ref|YP_001271088.1| maltose O-acetyltransferase 491077004895 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 491077004896 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 491077004897 putative trimer interface [polypeptide binding]; other site 491077004898 putative CoA binding site [chemical binding]; other site 491077004899 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 491077004900 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491077004901 active site 491077004902 catalytic tetrad [active] 491077004903 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491077004904 DNA-binding site [nucleotide binding]; DNA binding site 491077004905 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491077004906 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 491077004907 putative dimerization interface [polypeptide binding]; other site 491077004908 putative ligand binding site [chemical binding]; other site 491077004909 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 491077004910 Ligand Binding Site [chemical binding]; other site 491077004911 recombination factor protein RarA; Reviewed; Region: PRK13342 491077004912 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077004913 Walker A motif; other site 491077004914 ATP binding site [chemical binding]; other site 491077004915 Walker B motif; other site 491077004916 arginine finger; other site 491077004917 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 491077004918 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 491077004919 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004920 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077004921 Integrase core domain; Region: rve; pfam00665 491077004922 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004923 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 491077004924 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491077004925 active site 491077004926 metal binding site [ion binding]; metal-binding site 491077004927 hypothetical protein; Validated; Region: PRK02101 491077004928 potential frameshift: common BLAST hit: gi|148543729|ref|YP_001271099.1| oxalyl-CoA decarboxylase 491077004929 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 491077004930 PYR/PP interface [polypeptide binding]; other site 491077004931 TPP binding site [chemical binding]; other site 491077004932 dimer interface [polypeptide binding]; other site 491077004933 potential frameshift: common BLAST hit: gi|148543729|ref|YP_001271099.1| oxalyl-CoA decarboxylase 491077004934 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 491077004935 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 491077004936 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 491077004937 TPP-binding site [chemical binding]; other site 491077004938 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 491077004939 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 491077004940 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 491077004941 potential frameshift: common BLAST hit: gi|184156043|ref|YP_001844383.1| transposase 491077004942 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004943 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077004944 Integrase core domain; Region: rve; pfam00665 491077004945 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 491077004946 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 491077004947 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 491077004948 RNA binding surface [nucleotide binding]; other site 491077004949 Septation ring formation regulator, EzrA; Region: EzrA; pfam06160 491077004950 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 491077004951 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 491077004952 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491077004953 catalytic residue [active] 491077004954 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 491077004955 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 491077004956 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 491077004957 Ligand Binding Site [chemical binding]; other site 491077004958 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 491077004959 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 491077004960 active site 491077004961 HIGH motif; other site 491077004962 nucleotide binding site [chemical binding]; other site 491077004963 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 491077004964 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 491077004965 active site 491077004966 KMSKS motif; other site 491077004967 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 491077004968 tRNA binding surface [nucleotide binding]; other site 491077004969 anticodon binding site; other site 491077004970 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 491077004971 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 491077004972 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 491077004973 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 491077004974 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 491077004975 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 491077004976 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491077004977 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491077004978 Walker A/P-loop; other site 491077004979 ATP binding site [chemical binding]; other site 491077004980 Q-loop/lid; other site 491077004981 ABC transporter signature motif; other site 491077004982 Walker B; other site 491077004983 D-loop; other site 491077004984 H-loop/switch region; other site 491077004985 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 491077004986 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491077004987 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 491077004988 Walker A/P-loop; other site 491077004989 ATP binding site [chemical binding]; other site 491077004990 Q-loop/lid; other site 491077004991 ABC transporter signature motif; other site 491077004992 Walker B; other site 491077004993 D-loop; other site 491077004994 H-loop/switch region; other site 491077004995 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 491077004996 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491077004997 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077004998 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077004999 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 491077005000 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 491077005001 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 491077005002 MPN+ (JAMM) motif; other site 491077005003 Zinc-binding site [ion binding]; other site 491077005004 rod shape-determining protein MreB; Provisional; Region: PRK13927 491077005005 MreB and similar proteins; Region: MreB_like; cd10225 491077005006 nucleotide binding site [chemical binding]; other site 491077005007 Mg binding site [ion binding]; other site 491077005008 putative protofilament interaction site [polypeptide binding]; other site 491077005009 RodZ interaction site [polypeptide binding]; other site 491077005010 rod shape-determining protein MreC; Provisional; Region: PRK13922 491077005011 rod shape-determining protein MreC; Region: MreC; pfam04085 491077005012 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491077005013 dimer interface [polypeptide binding]; other site 491077005014 conserved gate region; other site 491077005015 putative PBP binding loops; other site 491077005016 ABC-ATPase subunit interface; other site 491077005017 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 491077005018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491077005019 Walker A/P-loop; other site 491077005020 ATP binding site [chemical binding]; other site 491077005021 Q-loop/lid; other site 491077005022 ABC transporter signature motif; other site 491077005023 Walker B; other site 491077005024 D-loop; other site 491077005025 H-loop/switch region; other site 491077005026 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491077005027 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 491077005028 substrate binding pocket [chemical binding]; other site 491077005029 membrane-bound complex binding site; other site 491077005030 hinge residues; other site 491077005031 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 491077005032 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 491077005033 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 491077005034 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 491077005035 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 491077005036 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 491077005037 Helix-turn-helix domain; Region: HTH_25; pfam13413 491077005038 non-specific DNA binding site [nucleotide binding]; other site 491077005039 salt bridge; other site 491077005040 sequence-specific DNA binding site [nucleotide binding]; other site 491077005041 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 491077005042 competence damage-inducible protein A; Provisional; Region: PRK00549 491077005043 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 491077005044 putative MPT binding site; other site 491077005045 Competence-damaged protein; Region: CinA; pfam02464 491077005046 recombinase A; Provisional; Region: recA; PRK09354 491077005047 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 491077005048 hexamer interface [polypeptide binding]; other site 491077005049 Walker A motif; other site 491077005050 ATP binding site [chemical binding]; other site 491077005051 Walker B motif; other site 491077005052 phosphodiesterase; Provisional; Region: PRK12704 491077005053 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 491077005054 Zn2+ binding site [ion binding]; other site 491077005055 Mg2+ binding site [ion binding]; other site 491077005056 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 491077005057 MutS domain I; Region: MutS_I; pfam01624 491077005058 MutS domain II; Region: MutS_II; pfam05188 491077005059 MutS domain III; Region: MutS_III; pfam05192 491077005060 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 491077005061 Walker A/P-loop; other site 491077005062 ATP binding site [chemical binding]; other site 491077005063 Q-loop/lid; other site 491077005064 ABC transporter signature motif; other site 491077005065 Walker B; other site 491077005066 D-loop; other site 491077005067 H-loop/switch region; other site 491077005068 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 491077005069 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 491077005070 ATP binding site [chemical binding]; other site 491077005071 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 491077005072 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 491077005073 RuvA N terminal domain; Region: RuvA_N; pfam01330 491077005074 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 491077005075 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 491077005076 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077005077 Walker A motif; other site 491077005078 ATP binding site [chemical binding]; other site 491077005079 Walker B motif; other site 491077005080 arginine finger; other site 491077005081 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 491077005082 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 491077005083 Queuine tRNA-ribosyltransferase; Region: TGT; pfam01702 491077005084 Preprotein translocase subunit; Region: YajC; pfam02699 491077005085 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 491077005086 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077005087 putative active site [active] 491077005088 putative NTP binding site [chemical binding]; other site 491077005089 putative nucleic acid binding site [nucleotide binding]; other site 491077005090 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077005091 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 491077005092 DHH family; Region: DHH; pfam01368 491077005093 DHHA1 domain; Region: DHHA1; pfam02272 491077005094 DEAD-like helicases superfamily; Region: DEXDc; smart00487 491077005095 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 491077005096 ATP binding site [chemical binding]; other site 491077005097 Mg++ binding site [ion binding]; other site 491077005098 motif III; other site 491077005099 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 491077005100 nucleotide binding region [chemical binding]; other site 491077005101 ATP-binding site [chemical binding]; other site 491077005102 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 491077005103 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 491077005104 motif 1; other site 491077005105 active site 491077005106 motif 2; other site 491077005107 motif 3; other site 491077005108 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 491077005109 hypothetical protein; Provisional; Region: PRK05473 491077005110 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 491077005111 hypothetical protein; Provisional; Region: PRK13678 491077005112 Colicin V production protein; Region: Colicin_V; pfam02674 491077005113 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 491077005114 MutS domain III; Region: MutS_III; pfam05192 491077005115 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491077005116 Walker A/P-loop; other site 491077005117 ATP binding site [chemical binding]; other site 491077005118 Q-loop/lid; other site 491077005119 ABC transporter signature motif; other site 491077005120 Walker B; other site 491077005121 D-loop; other site 491077005122 H-loop/switch region; other site 491077005123 Smr domain; Region: Smr; pfam01713 491077005124 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 491077005125 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 491077005126 catalytic residues [active] 491077005127 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 491077005128 glutamate racemase; Provisional; Region: PRK00865 491077005129 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 491077005130 active site 491077005131 dimerization interface [polypeptide binding]; other site 491077005132 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 491077005133 active site 491077005134 metal binding site [ion binding]; metal-binding site 491077005135 homotetramer interface [polypeptide binding]; other site 491077005136 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_30; cd04643 491077005137 FOG: CBS domain [General function prediction only]; Region: COG0517 491077005138 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 491077005139 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 491077005140 active site 491077005141 motif I; other site 491077005142 motif II; other site 491077005143 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 491077005144 Mechanosensitive ion channel; Region: MS_channel; pfam00924 491077005145 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 491077005146 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 491077005147 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 491077005148 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 491077005149 active site 491077005150 catabolite control protein A; Region: ccpA; TIGR01481 491077005151 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491077005152 DNA binding site [nucleotide binding] 491077005153 domain linker motif; other site 491077005154 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 491077005155 dimerization interface [polypeptide binding]; other site 491077005156 effector binding site; other site 491077005157 hypothetical protein; Validated; Region: PRK00110 491077005158 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 491077005159 Walker A motif; other site 491077005160 ATP binding site [chemical binding]; other site 491077005161 Walker B motif; other site 491077005162 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 491077005163 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 491077005164 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 491077005165 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005166 Integrase core domain; Region: rve; pfam00665 491077005167 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 491077005168 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 491077005169 propionate/acetate kinase; Provisional; Region: PRK12379 491077005170 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 491077005171 putative active site [active] 491077005172 putative metal binding site [ion binding]; other site 491077005173 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 491077005174 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 491077005175 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 491077005176 active site 491077005177 motif I; other site 491077005178 motif II; other site 491077005179 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 491077005180 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 491077005181 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 491077005182 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 491077005183 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 491077005184 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 491077005185 Integrase core domain; Region: rve; pfam00665 491077005186 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 491077005187 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077005188 Walker A motif; other site 491077005189 ATP binding site [chemical binding]; other site 491077005190 Walker B motif; other site 491077005191 arginine finger; other site 491077005192 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 491077005193 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 491077005194 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 491077005195 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 491077005196 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 491077005197 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 complex...; Region: ArsC_Spx; cd03032 491077005198 ArsC family; Region: ArsC; pfam03960 491077005199 putative catalytic residues [active] 491077005200 thiol/disulfide switch; other site 491077005201 adaptor protein; Provisional; Region: PRK02315 491077005202 Competence protein CoiA-like family; Region: CoiA; cl11541 491077005203 Peptidase family C69; Region: Peptidase_C69; pfam03577 491077005204 Thioredoxin; Region: Thioredoxin_5; pfam13743 491077005205 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005206 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077005207 Integrase core domain; Region: rve; pfam00665 491077005208 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 491077005209 synthetase active site [active] 491077005210 NTP binding site [chemical binding]; other site 491077005211 metal binding site [ion binding]; metal-binding site 491077005212 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 491077005213 ATP-NAD kinase; Region: NAD_kinase; pfam01513 491077005214 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 491077005215 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 491077005216 active site 491077005217 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005218 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077005219 Integrase core domain; Region: rve; pfam00665 491077005220 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 491077005221 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 491077005222 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 491077005223 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 491077005224 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 491077005225 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 491077005226 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 491077005227 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 491077005228 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 491077005229 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 491077005230 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 491077005231 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 491077005232 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 491077005233 Helix-turn-helix domain; Region: HTH_28; pfam13518 491077005234 putative transposase OrfB; Reviewed; Region: PHA02517 491077005235 HTH-like domain; Region: HTH_21; pfam13276 491077005236 Integrase core domain; Region: rve; pfam00665 491077005237 Integrase core domain; Region: rve_3; pfam13683 491077005238 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 491077005239 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 491077005240 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 491077005241 S-adenosylmethionine binding site [chemical binding]; other site 491077005242 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 491077005243 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 491077005244 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 491077005245 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 491077005246 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 491077005247 Protein of unknown function (DUF4044); Region: DUF4044; pfam13253 491077005248 cell division protein MraZ; Reviewed; Region: PRK00326 491077005249 MraZ protein; Region: MraZ; pfam02381 491077005250 MraZ protein; Region: MraZ; pfam02381 491077005251 MraW methylase family; Region: Methyltransf_5; pfam01795 491077005252 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 491077005253 Cell division protein FtsL; Region: FtsL; cl11433 491077005254 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 491077005255 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 491077005256 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 491077005257 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 491077005258 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 491077005259 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 491077005260 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 491077005261 Mg++ binding site [ion binding]; other site 491077005262 putative catalytic motif [active] 491077005263 putative substrate binding site [chemical binding]; other site 491077005264 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 491077005265 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 491077005266 S-adenosylmethionine binding site [chemical binding]; other site 491077005267 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491077005268 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 491077005269 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 491077005270 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 491077005271 active site 491077005272 homodimer interface [polypeptide binding]; other site 491077005273 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 491077005274 Cell division protein FtsQ; Region: FtsQ; pfam03799 491077005275 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 491077005276 Cell division protein FtsA; Region: FtsA; smart00842 491077005277 Cell division protein FtsA; Region: FtsA; pfam14450 491077005278 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 491077005279 cell division protein FtsZ; Validated; Region: PRK09330 491077005280 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 491077005281 nucleotide binding site [chemical binding]; other site 491077005282 SulA interaction site; other site 491077005283 Protein of unknown function (DUF552); Region: DUF552; pfam04472 491077005284 YGGT family; Region: YGGT; pfam02325 491077005285 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 491077005286 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 491077005287 RNA binding surface [nucleotide binding]; other site 491077005288 DivIVA protein; Region: DivIVA; pfam05103 491077005289 DivIVA domain; Region: DivI1A_domain; TIGR03544 491077005290 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 491077005291 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 491077005292 active site 491077005293 HIGH motif; other site 491077005294 nucleotide binding site [chemical binding]; other site 491077005295 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 491077005296 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 491077005297 active site 491077005298 KMSKS motif; other site 491077005299 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 491077005300 tRNA binding surface [nucleotide binding]; other site 491077005301 anticodon binding site; other site 491077005302 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 491077005303 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 491077005304 DNA-binding site [nucleotide binding]; DNA binding site 491077005305 RNA-binding motif; other site 491077005306 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 491077005307 dimer interface [polypeptide binding]; other site 491077005308 ADP-ribose binding site [chemical binding]; other site 491077005309 active site 491077005310 nudix motif; other site 491077005311 metal binding site [ion binding]; metal-binding site 491077005312 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 491077005313 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 491077005314 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 491077005315 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 491077005316 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491077005317 catalytic residue [active] 491077005318 Putative amino acid metabolism; Region: DUF1831; pfam08866 491077005319 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 491077005320 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 491077005321 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 491077005322 catalytic core [active] 491077005323 Tetratricopeptide repeat; Region: TPR_12; pfam13424 491077005324 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 491077005325 binding surface 491077005326 TPR motif; other site 491077005327 TPR repeat; Region: TPR_11; pfam13414 491077005328 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 491077005329 binding surface 491077005330 TPR motif; other site 491077005331 Tetratricopeptide repeat; Region: TPR_16; pfam13432 491077005332 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 491077005333 AAA domain; Region: AAA_30; pfam13604 491077005334 Family description; Region: UvrD_C_2; pfam13538 491077005335 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 491077005336 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 491077005337 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491077005338 active site 491077005339 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 491077005340 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 491077005341 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 491077005342 aspartate kinase; Reviewed; Region: PRK09034 491077005343 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 491077005344 putative catalytic residues [active] 491077005345 putative nucleotide binding site [chemical binding]; other site 491077005346 putative aspartate binding site [chemical binding]; other site 491077005347 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 491077005348 allosteric regulatory residue; other site 491077005349 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 491077005350 diaminopimelate decarboxylase; Region: lysA; TIGR01048 491077005351 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 491077005352 active site 491077005353 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 491077005354 substrate binding site [chemical binding]; other site 491077005355 catalytic residues [active] 491077005356 dimer interface [polypeptide binding]; other site 491077005357 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 491077005358 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 491077005359 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 491077005360 active site 491077005361 trimer interface [polypeptide binding]; other site 491077005362 substrate binding site [chemical binding]; other site 491077005363 CoA binding site [chemical binding]; other site 491077005364 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 491077005365 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 491077005366 metal binding site [ion binding]; metal-binding site 491077005367 putative dimer interface [polypeptide binding]; other site 491077005368 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 491077005369 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 491077005370 dimer interface [polypeptide binding]; other site 491077005371 active site 491077005372 catalytic residue [active] 491077005373 dihydrodipicolinate reductase; Provisional; Region: PRK00048 491077005374 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 491077005375 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 491077005376 aromatic amino acid aminotransferase; Validated; Region: PRK07309 491077005377 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 491077005378 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077005379 homodimer interface [polypeptide binding]; other site 491077005380 catalytic residue [active] 491077005381 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 491077005382 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 491077005383 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 491077005384 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 491077005385 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 491077005386 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 491077005387 fructuronate transporter; Provisional; Region: PRK10034; cl15264 491077005388 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 491077005389 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 491077005390 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 491077005391 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 491077005392 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 491077005393 NlpC/P60 family; Region: NLPC_P60; pfam00877 491077005394 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 491077005395 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 491077005396 Protein of unknown function (DUF1447); Region: DUF1447; pfam07288 491077005397 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 491077005398 active site 491077005399 catalytic residues [active] 491077005400 metal binding site [ion binding]; metal-binding site 491077005401 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 491077005402 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 491077005403 TPP-binding site [chemical binding]; other site 491077005404 heterodimer interface [polypeptide binding]; other site 491077005405 tetramer interface [polypeptide binding]; other site 491077005406 phosphorylation loop region [posttranslational modification] 491077005407 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 491077005408 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 491077005409 alpha subunit interface [polypeptide binding]; other site 491077005410 TPP binding site [chemical binding]; other site 491077005411 heterodimer interface [polypeptide binding]; other site 491077005412 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 491077005413 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 491077005414 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 491077005415 E3 interaction surface; other site 491077005416 lipoyl attachment site [posttranslational modification]; other site 491077005417 e3 binding domain; Region: E3_binding; pfam02817 491077005418 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 491077005419 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 491077005420 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 491077005421 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491077005422 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 491077005423 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 491077005424 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077005425 putative active site [active] 491077005426 putative NTP binding site [chemical binding]; other site 491077005427 putative nucleic acid binding site [nucleotide binding]; other site 491077005428 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077005429 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 491077005430 Uncharacterized protein family (UPF0223); Region: UPF0223; pfam05256 491077005431 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; Region: IMPase_like; cd01637 491077005432 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 491077005433 active site 491077005434 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 491077005435 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 491077005436 G1 box; other site 491077005437 putative GEF interaction site [polypeptide binding]; other site 491077005438 GTP/Mg2+ binding site [chemical binding]; other site 491077005439 Switch I region; other site 491077005440 G2 box; other site 491077005441 G3 box; other site 491077005442 Switch II region; other site 491077005443 G4 box; other site 491077005444 G5 box; other site 491077005445 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 491077005446 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 491077005447 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077005448 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077005449 cell division protein FtsW; Region: ftsW; TIGR02614 491077005450 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; pfam09902 491077005451 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 491077005452 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 491077005453 S-adenosylmethionine binding site [chemical binding]; other site 491077005454 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 491077005455 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 491077005456 active site 491077005457 (T/H)XGH motif; other site 491077005458 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 491077005459 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 491077005460 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 491077005461 SLBB domain; Region: SLBB; pfam10531 491077005462 comEA protein; Region: comE; TIGR01259 491077005463 Helix-hairpin-helix motif; Region: HHH; pfam00633 491077005464 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 491077005465 catalytic motif [active] 491077005466 Zn binding site [ion binding]; other site 491077005467 Competence protein; Region: Competence; pfam03772 491077005468 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 491077005469 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 491077005470 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 491077005471 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 491077005472 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 491077005473 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 491077005474 16S/18S rRNA binding site [nucleotide binding]; other site 491077005475 S13e-L30e interaction site [polypeptide binding]; other site 491077005476 25S rRNA binding site [nucleotide binding]; other site 491077005477 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 491077005478 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 491077005479 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 491077005480 elongation factor Tu; Reviewed; Region: PRK00049 491077005481 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 491077005482 G1 box; other site 491077005483 GEF interaction site [polypeptide binding]; other site 491077005484 GTP/Mg2+ binding site [chemical binding]; other site 491077005485 Switch I region; other site 491077005486 G2 box; other site 491077005487 G3 box; other site 491077005488 Switch II region; other site 491077005489 G4 box; other site 491077005490 G5 box; other site 491077005491 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 491077005492 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 491077005493 Antibiotic Binding Site [chemical binding]; other site 491077005494 trigger factor; Provisional; Region: tig; PRK01490 491077005495 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 491077005496 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 491077005497 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 491077005498 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 491077005499 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077005500 Walker A motif; other site 491077005501 ATP binding site [chemical binding]; other site 491077005502 Walker B motif; other site 491077005503 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 491077005504 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 491077005505 G1 box; other site 491077005506 GTP/Mg2+ binding site [chemical binding]; other site 491077005507 Switch I region; other site 491077005508 G2 box; other site 491077005509 G3 box; other site 491077005510 Switch II region; other site 491077005511 G4 box; other site 491077005512 G5 box; other site 491077005513 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u4; cd11541 491077005514 putative metal binding site [ion binding]; other site 491077005515 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 491077005516 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077005517 putative active site [active] 491077005518 putative NTP binding site [chemical binding]; other site 491077005519 putative nucleic acid binding site [nucleotide binding]; other site 491077005520 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077005521 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 491077005522 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 491077005523 GIY-YIG motif/motif A; other site 491077005524 active site 491077005525 catalytic site [active] 491077005526 putative DNA binding site [nucleotide binding]; other site 491077005527 metal binding site [ion binding]; metal-binding site 491077005528 UvrB/uvrC motif; Region: UVR; pfam02151 491077005529 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 491077005530 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 491077005531 DNA binding site [nucleotide binding] 491077005532 GTPase CgtA; Reviewed; Region: obgE; PRK12297 491077005533 GTP1/OBG; Region: GTP1_OBG; pfam01018 491077005534 Obg GTPase; Region: Obg; cd01898 491077005535 G1 box; other site 491077005536 GTP/Mg2+ binding site [chemical binding]; other site 491077005537 Switch I region; other site 491077005538 G2 box; other site 491077005539 G3 box; other site 491077005540 Switch II region; other site 491077005541 G4 box; other site 491077005542 G5 box; other site 491077005543 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 491077005544 ribonuclease Z; Region: RNase_Z; TIGR02651 491077005545 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 491077005546 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491077005547 NAD(P) binding site [chemical binding]; other site 491077005548 active site 491077005549 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 491077005550 DHH family; Region: DHH; pfam01368 491077005551 DHHA1 domain; Region: DHHA1; pfam02272 491077005552 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; pfam10141 491077005553 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491077005554 active site 491077005555 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005556 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077005557 Integrase core domain; Region: rve; pfam00665 491077005558 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005559 Integrase core domain; Region: rve; pfam00665 491077005560 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 491077005561 Int/Topo IB signature motif; other site 491077005562 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491077005563 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 491077005564 non-specific DNA binding site [nucleotide binding]; other site 491077005565 salt bridge; other site 491077005566 sequence-specific DNA binding site [nucleotide binding]; other site 491077005567 Helix-turn-helix domain; Region: HTH_17; pfam12728 491077005568 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 491077005569 polymerase nucleotide-binding site; other site 491077005570 DNA-binding residues [nucleotide binding]; DNA binding site 491077005571 nucleotide binding site [chemical binding]; other site 491077005572 primase nucleotide-binding site [nucleotide binding]; other site 491077005573 Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942 491077005574 D5 N terminal like; Region: D5_N; smart00885 491077005575 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 491077005576 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 491077005577 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005578 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077005579 Integrase core domain; Region: rve; pfam00665 491077005580 Protein of unknown function (DUF2758); Region: DUF2758; pfam10957 491077005581 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 491077005582 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 491077005583 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 491077005584 RNA/DNA hybrid binding site [nucleotide binding]; other site 491077005585 active site 491077005586 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 491077005587 "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...; Region: init_cond_enzymes; cd00827 491077005588 dimer interface [polypeptide binding]; other site 491077005589 active site 491077005590 LexA repressor; Validated; Region: PRK00215 491077005591 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 491077005592 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 491077005593 Catalytic site [active] 491077005594 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 491077005595 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 491077005596 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 491077005597 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 491077005598 putative acyl-acceptor binding pocket; other site 491077005599 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 491077005600 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 491077005601 S-adenosylmethionine binding site [chemical binding]; other site 491077005602 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 491077005603 GIY-YIG motif/motif A; other site 491077005604 putative active site [active] 491077005605 putative metal binding site [ion binding]; other site 491077005606 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 491077005607 D-lactate dehydrogenase; Validated; Region: PRK08605 491077005608 homodimer interface [polypeptide binding]; other site 491077005609 ligand binding site [chemical binding]; other site 491077005610 NAD binding site [chemical binding]; other site 491077005611 catalytic site [active] 491077005612 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 491077005613 rRNA interaction site [nucleotide binding]; other site 491077005614 S8 interaction site; other site 491077005615 putative laminin-1 binding site; other site 491077005616 elongation factor Ts; Provisional; Region: tsf; PRK09377 491077005617 UBA/TS-N domain; Region: UBA; pfam00627 491077005618 Elongation factor TS; Region: EF_TS; pfam00889 491077005619 Elongation factor TS; Region: EF_TS; pfam00889 491077005620 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 491077005621 putative nucleotide binding site [chemical binding]; other site 491077005622 uridine monophosphate binding site [chemical binding]; other site 491077005623 homohexameric interface [polypeptide binding]; other site 491077005624 ribosome recycling factor; Reviewed; Region: frr; PRK00083 491077005625 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 491077005626 hinge region; other site 491077005627 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 491077005628 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 491077005629 catalytic residue [active] 491077005630 putative FPP diphosphate binding site; other site 491077005631 putative FPP binding hydrophobic cleft; other site 491077005632 dimer interface [polypeptide binding]; other site 491077005633 putative IPP diphosphate binding site; other site 491077005634 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 491077005635 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 491077005636 RIP metalloprotease RseP; Region: TIGR00054 491077005637 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 491077005638 active site 491077005639 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 491077005640 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 491077005641 protein binding site [polypeptide binding]; other site 491077005642 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 491077005643 putative substrate binding region [chemical binding]; other site 491077005644 prolyl-tRNA synthetase; Provisional; Region: PRK09194 491077005645 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 491077005646 dimer interface [polypeptide binding]; other site 491077005647 motif 1; other site 491077005648 active site 491077005649 motif 2; other site 491077005650 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...; Region: ProRS-INS; cd04334 491077005651 putative deacylase active site [active] 491077005652 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 491077005653 active site 491077005654 motif 3; other site 491077005655 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 491077005656 anticodon binding site; other site 491077005657 DNA polymerase III PolC; Validated; Region: polC; PRK00448 491077005658 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 491077005659 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 491077005660 generic binding surface II; other site 491077005661 generic binding surface I; other site 491077005662 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 491077005663 active site 491077005664 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 491077005665 active site 491077005666 catalytic site [active] 491077005667 substrate binding site [chemical binding]; other site 491077005668 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 491077005669 ribosome maturation protein RimP; Reviewed; Region: PRK00092 491077005670 Sm and related proteins; Region: Sm_like; cl00259 491077005671 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 491077005672 putative oligomer interface [polypeptide binding]; other site 491077005673 putative RNA binding site [nucleotide binding]; other site 491077005674 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 491077005675 NusA N-terminal domain; Region: NusA_N; pfam08529 491077005676 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 491077005677 RNA binding site [nucleotide binding]; other site 491077005678 homodimer interface [polypeptide binding]; other site 491077005679 NusA-like KH domain; Region: KH_5; pfam13184 491077005680 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 491077005681 G-X-X-G motif; other site 491077005682 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 491077005683 putative RNA binding cleft [nucleotide binding]; other site 491077005684 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 491077005685 translation initiation factor IF-2; Validated; Region: infB; PRK05306 491077005686 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 491077005687 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 491077005688 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 491077005689 G1 box; other site 491077005690 putative GEF interaction site [polypeptide binding]; other site 491077005691 GTP/Mg2+ binding site [chemical binding]; other site 491077005692 Switch I region; other site 491077005693 G2 box; other site 491077005694 G3 box; other site 491077005695 Switch II region; other site 491077005696 G4 box; other site 491077005697 G5 box; other site 491077005698 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 491077005699 Translation-initiation factor 2; Region: IF-2; pfam11987 491077005700 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 491077005701 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 491077005702 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 491077005703 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 491077005704 RNA binding site [nucleotide binding]; other site 491077005705 active site 491077005706 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 491077005707 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 491077005708 active site 491077005709 Riboflavin kinase; Region: Flavokinase; smart00904 491077005710 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 491077005711 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 491077005712 GrpE; Region: GrpE; pfam01025 491077005713 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 491077005714 dimer interface [polypeptide binding]; other site 491077005715 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 491077005716 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 491077005717 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 491077005718 nucleotide binding site [chemical binding]; other site 491077005719 NEF interaction site [polypeptide binding]; other site 491077005720 SBD interface [polypeptide binding]; other site 491077005721 chaperone protein DnaJ; Provisional; Region: PRK14276 491077005722 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 491077005723 HSP70 interaction site [polypeptide binding]; other site 491077005724 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 491077005725 substrate binding site [polypeptide binding]; other site 491077005726 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 491077005727 Zn binding sites [ion binding]; other site 491077005728 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 491077005729 dimer interface [polypeptide binding]; other site 491077005730 GTP-binding protein LepA; Provisional; Region: PRK05433 491077005731 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 491077005732 G1 box; other site 491077005733 putative GEF interaction site [polypeptide binding]; other site 491077005734 GTP/Mg2+ binding site [chemical binding]; other site 491077005735 Switch I region; other site 491077005736 G2 box; other site 491077005737 G3 box; other site 491077005738 Switch II region; other site 491077005739 G4 box; other site 491077005740 G5 box; other site 491077005741 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 491077005742 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 491077005743 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 491077005744 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077005745 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077005746 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005747 Integrase core domain; Region: rve; pfam00665 491077005748 Peptidase family C69; Region: Peptidase_C69; pfam03577 491077005749 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 491077005750 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005751 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077005752 Integrase core domain; Region: rve; pfam00665 491077005753 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 491077005754 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 491077005755 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 491077005756 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491077005757 NAD binding site [chemical binding]; other site 491077005758 dimer interface [polypeptide binding]; other site 491077005759 substrate binding site [chemical binding]; other site 491077005760 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 491077005761 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 491077005762 S-adenosylmethionine binding site [chemical binding]; other site 491077005763 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 491077005764 RNA methyltransferase, RsmE family; Region: TIGR00046 491077005765 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 491077005766 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 491077005767 Zn2+ binding site [ion binding]; other site 491077005768 Mg2+ binding site [ion binding]; other site 491077005769 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 491077005770 synthetase active site [active] 491077005771 NTP binding site [chemical binding]; other site 491077005772 metal binding site [ion binding]; metal-binding site 491077005773 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 491077005774 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 491077005775 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 491077005776 putative active site [active] 491077005777 dimerization interface [polypeptide binding]; other site 491077005778 putative tRNAtyr binding site [nucleotide binding]; other site 491077005779 Phosphotransferase enzyme family; Region: APH; pfam01636 491077005780 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 491077005781 active site 491077005782 ATP binding site [chemical binding]; other site 491077005783 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 491077005784 substrate binding site [chemical binding]; other site 491077005785 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 491077005786 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 491077005787 dimer interface [polypeptide binding]; other site 491077005788 anticodon binding site; other site 491077005789 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 491077005790 homodimer interface [polypeptide binding]; other site 491077005791 motif 1; other site 491077005792 active site 491077005793 motif 2; other site 491077005794 GAD domain; Region: GAD; pfam02938 491077005795 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 491077005796 active site 491077005797 motif 3; other site 491077005798 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491077005799 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491077005800 Walker A/P-loop; other site 491077005801 ATP binding site [chemical binding]; other site 491077005802 Q-loop/lid; other site 491077005803 ABC transporter signature motif; other site 491077005804 Walker B; other site 491077005805 D-loop; other site 491077005806 H-loop/switch region; other site 491077005807 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491077005808 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 491077005809 substrate binding pocket [chemical binding]; other site 491077005810 membrane-bound complex binding site; other site 491077005811 hinge residues; other site 491077005812 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491077005813 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491077005814 dimer interface [polypeptide binding]; other site 491077005815 conserved gate region; other site 491077005816 putative PBP binding loops; other site 491077005817 ABC-ATPase subunit interface; other site 491077005818 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 491077005819 Yqey-like protein; Region: YqeY; pfam09424 491077005820 potential frameshift: common BLAST hit: gi|148543961|ref|YP_001271331.1| choloylglycine hydrolase 491077005821 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...; Region: Ntn_hydrolase; cl00467 491077005822 active site 491077005823 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...; Region: Ntn_hydrolase; cl00467 491077005824 argininosuccinate synthase; Provisional; Region: PRK13820 491077005825 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 491077005826 ANP binding site [chemical binding]; other site 491077005827 Substrate Binding Site II [chemical binding]; other site 491077005828 Substrate Binding Site I [chemical binding]; other site 491077005829 argininosuccinate lyase; Provisional; Region: PRK00855 491077005830 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 491077005831 active sites [active] 491077005832 tetramer interface [polypeptide binding]; other site 491077005833 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077005834 Integrase core domain; Region: rve; pfam00665 491077005835 BioY family; Region: BioY; pfam02632 491077005836 Biotin operon repressor [Transcription]; Region: BirA; COG1654 491077005837 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 491077005838 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 491077005839 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 491077005840 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 491077005841 PhoH-like protein; Region: PhoH; pfam02562 491077005842 metal-binding heat shock protein; Provisional; Region: PRK00016 491077005843 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 491077005844 GTPase Era; Reviewed; Region: era; PRK00089 491077005845 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 491077005846 G1 box; other site 491077005847 GTP/Mg2+ binding site [chemical binding]; other site 491077005848 Switch I region; other site 491077005849 G2 box; other site 491077005850 Switch II region; other site 491077005851 G3 box; other site 491077005852 G4 box; other site 491077005853 G5 box; other site 491077005854 Recombination protein O N terminal; Region: RecO_N; pfam11967 491077005855 DNA repair protein RecO; Region: reco; TIGR00613 491077005856 Recombination protein O C terminal; Region: RecO_C; pfam02565 491077005857 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 491077005858 dimer interface [polypeptide binding]; other site 491077005859 motif 1; other site 491077005860 active site 491077005861 motif 2; other site 491077005862 motif 3; other site 491077005863 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 491077005864 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 491077005865 DALR anticodon binding domain; Region: DALR_1; pfam05746 491077005866 DNA primase; Validated; Region: dnaG; PRK05667 491077005867 CHC2 zinc finger; Region: zf-CHC2; pfam01807 491077005868 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 491077005869 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 491077005870 active site 491077005871 metal binding site [ion binding]; metal-binding site 491077005872 interdomain interaction site; other site 491077005873 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 491077005874 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 491077005875 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 491077005876 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 491077005877 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491077005878 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 491077005879 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 491077005880 DNA binding residues [nucleotide binding] 491077005881 aromatic amino acid aminotransferase; Validated; Region: PRK07309 491077005882 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 491077005883 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491077005884 homodimer interface [polypeptide binding]; other site 491077005885 catalytic residue [active] 491077005886 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 491077005887 Family of unknown function (DUF633); Region: DUF633; pfam04816 491077005888 Uncharacterized conserved protein [Function unknown]; Region: COG0327 491077005889 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 491077005890 peptidase T; Region: peptidase-T; TIGR01882 491077005891 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 491077005892 metal binding site [ion binding]; metal-binding site 491077005893 dimer interface [polypeptide binding]; other site 491077005894 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 491077005895 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 491077005896 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 491077005897 active site 491077005898 PHP Thumb interface [polypeptide binding]; other site 491077005899 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 491077005900 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 491077005901 generic binding surface II; other site 491077005902 generic binding surface I; other site 491077005903 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 491077005904 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 491077005905 domain interfaces; other site 491077005906 active site 491077005907 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 491077005908 S1 domain; Region: S1_2; pfam13509 491077005909 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 491077005910 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 491077005911 active site 491077005912 DNA binding site [nucleotide binding] 491077005913 Int/Topo IB signature motif; other site 491077005914 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 491077005915 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 491077005916 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 491077005917 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 491077005918 RNA binding surface [nucleotide binding]; other site 491077005919 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 491077005920 active site 491077005921 Predicted membrane protein [Function unknown]; Region: COG3601 491077005922 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 491077005923 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 491077005924 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077005925 putative active site [active] 491077005926 putative NTP binding site [chemical binding]; other site 491077005927 putative nucleic acid binding site [nucleotide binding]; other site 491077005928 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077005929 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 491077005930 RQC domain; Region: RQC; cl09632 491077005931 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 491077005932 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 491077005933 ATP binding site [chemical binding]; other site 491077005934 putative Mg++ binding site [ion binding]; other site 491077005935 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 491077005936 nucleotide binding region [chemical binding]; other site 491077005937 ATP-binding site [chemical binding]; other site 491077005938 cytidylate kinase; Provisional; Region: cmk; PRK00023 491077005939 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 491077005940 CMP-binding site; other site 491077005941 The sites determining sugar specificity; other site 491077005942 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 491077005943 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 491077005944 RNA binding site [nucleotide binding]; other site 491077005945 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 491077005946 RNA binding site [nucleotide binding]; other site 491077005947 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 491077005948 RNA binding site [nucleotide binding]; other site 491077005949 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...; Region: S1_RPS1_repeat_hs4; cd05692 491077005950 RNA binding site [nucleotide binding]; other site 491077005951 GTP-binding protein Der; Reviewed; Region: PRK00093 491077005952 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 491077005953 G1 box; other site 491077005954 GTP/Mg2+ binding site [chemical binding]; other site 491077005955 Switch I region; other site 491077005956 G2 box; other site 491077005957 Switch II region; other site 491077005958 G3 box; other site 491077005959 G4 box; other site 491077005960 G5 box; other site 491077005961 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 491077005962 G1 box; other site 491077005963 GTP/Mg2+ binding site [chemical binding]; other site 491077005964 Switch I region; other site 491077005965 G2 box; other site 491077005966 G3 box; other site 491077005967 Switch II region; other site 491077005968 G4 box; other site 491077005969 G5 box; other site 491077005970 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 491077005971 IHF dimer interface [polypeptide binding]; other site 491077005972 IHF - DNA interface [nucleotide binding]; other site 491077005973 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 491077005974 binding surface 491077005975 TPR motif; other site 491077005976 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 491077005977 binding surface 491077005978 Tetratricopeptide repeat; Region: TPR_16; pfam13432 491077005979 TPR motif; other site 491077005980 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 491077005981 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077005982 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077005983 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 491077005984 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 491077005985 active site 491077005986 NTP binding site [chemical binding]; other site 491077005987 metal binding triad [ion binding]; metal-binding site 491077005988 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 491077005989 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 491077005990 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 491077005991 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491077005992 Walker A/P-loop; other site 491077005993 ATP binding site [chemical binding]; other site 491077005994 Q-loop/lid; other site 491077005995 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491077005996 ABC transporter signature motif; other site 491077005997 Walker B; other site 491077005998 D-loop; other site 491077005999 ABC transporter; Region: ABC_tran_2; pfam12848 491077006000 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491077006001 thymidylate synthase; Region: thym_sym; TIGR03284 491077006002 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 491077006003 dimerization interface [polypeptide binding]; other site 491077006004 active site 491077006005 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 491077006006 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 491077006007 folate binding site [chemical binding]; other site 491077006008 NADP+ binding site [chemical binding]; other site 491077006009 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 491077006010 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 491077006011 EDD domain protein, DegV family; Region: DegV; TIGR00762 491077006012 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 491077006013 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 491077006014 active site 491077006015 catalytic triad [active] 491077006016 oxyanion hole [active] 491077006017 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; pfam09911 491077006018 hypothetical protein; Provisional; Region: PRK13672 491077006019 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 491077006020 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 491077006021 GTP/Mg2+ binding site [chemical binding]; other site 491077006022 G4 box; other site 491077006023 G5 box; other site 491077006024 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 491077006025 G1 box; other site 491077006026 G1 box; other site 491077006027 GTP/Mg2+ binding site [chemical binding]; other site 491077006028 Switch I region; other site 491077006029 G2 box; other site 491077006030 G2 box; other site 491077006031 Switch I region; other site 491077006032 G3 box; other site 491077006033 G3 box; other site 491077006034 Switch II region; other site 491077006035 Switch II region; other site 491077006036 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 491077006037 RNA/DNA hybrid binding site [nucleotide binding]; other site 491077006038 active site 491077006039 DNA protecting protein DprA; Region: dprA; TIGR00732 491077006040 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 491077006041 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 491077006042 active site 491077006043 metal binding site [ion binding]; metal-binding site 491077006044 DNA topoisomerase I; Validated; Region: PRK05582 491077006045 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 491077006046 active site 491077006047 metal binding site [ion binding]; metal-binding site 491077006048 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 491077006049 domain I; other site 491077006050 DNA binding groove [nucleotide binding] 491077006051 phosphate binding site [ion binding]; other site 491077006052 domain II; other site 491077006053 domain III; other site 491077006054 nucleotide binding site [chemical binding]; other site 491077006055 catalytic site [active] 491077006056 domain IV; other site 491077006057 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 491077006058 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 491077006059 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 491077006060 active site 491077006061 catalytic residues [active] 491077006062 membrane protein; Provisional; Region: PRK14392 491077006063 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 491077006064 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 491077006065 ATP binding site [chemical binding]; other site 491077006066 Mg2+ binding site [ion binding]; other site 491077006067 G-X-G motif; other site 491077006068 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 491077006069 anchoring element; other site 491077006070 dimer interface [polypeptide binding]; other site 491077006071 ATP binding site [chemical binding]; other site 491077006072 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 491077006073 active site 491077006074 putative metal-binding site [ion binding]; other site 491077006075 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 491077006076 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 491077006077 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 491077006078 CAP-like domain; other site 491077006079 active site 491077006080 primary dimer interface [polypeptide binding]; other site 491077006081 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491077006082 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 491077006083 nudix motif; other site 491077006084 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 491077006085 DHH family; Region: DHH; pfam01368 491077006086 DHHA2 domain; Region: DHHA2; pfam02833 491077006087 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 491077006088 Helix-turn-helix domain; Region: HTH_28; pfam13518 491077006089 putative transposase OrfB; Reviewed; Region: PHA02517 491077006090 HTH-like domain; Region: HTH_21; pfam13276 491077006091 Integrase core domain; Region: rve; pfam00665 491077006092 Integrase core domain; Region: rve_3; pfam13683 491077006093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 491077006094 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 491077006095 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491077006096 Coenzyme A binding pocket [chemical binding]; other site 491077006097 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077006098 Integrase core domain; Region: rve; pfam00665 491077006099 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077006100 Asp23 family; Region: Asp23; pfam03780 491077006101 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 491077006102 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 491077006103 N- and C-terminal domain interface [polypeptide binding]; other site 491077006104 active site 491077006105 catalytic site [active] 491077006106 metal binding site [ion binding]; metal-binding site 491077006107 carbohydrate binding site [chemical binding]; other site 491077006108 ATP binding site [chemical binding]; other site 491077006109 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491077006110 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491077006111 DNA binding site [nucleotide binding] 491077006112 domain linker motif; other site 491077006113 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 491077006114 putative dimerization interface [polypeptide binding]; other site 491077006115 putative ligand binding site [chemical binding]; other site 491077006116 GntP family permease; Region: GntP_permease; pfam02447 491077006117 fructuronate transporter; Provisional; Region: PRK10034; cl15264 491077006118 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491077006119 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 491077006120 Presynaptic Site I dimer interface [polypeptide binding]; other site 491077006121 catalytic residues [active] 491077006122 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 491077006123 Synaptic Flat tetramer interface [polypeptide binding]; other site 491077006124 Synaptic Site I dimer interface [polypeptide binding]; other site 491077006125 DNA binding site [nucleotide binding] 491077006126 Recombinase; Region: Recombinase; pfam07508 491077006127 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 491077006128 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 491077006129 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 491077006130 Domain of unknown function (DUF955); Region: DUF955; pfam06114 491077006131 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491077006132 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 491077006133 non-specific DNA binding site [nucleotide binding]; other site 491077006134 salt bridge; other site 491077006135 sequence-specific DNA binding site [nucleotide binding]; other site 491077006136 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 491077006137 non-specific DNA binding site [nucleotide binding]; other site 491077006138 salt bridge; other site 491077006139 sequence-specific DNA binding site [nucleotide binding]; other site 491077006140 Prophage antirepressor [Transcription]; Region: COG3617 491077006141 BRO family, N-terminal domain; Region: Bro-N; smart01040 491077006142 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 491077006143 ERF superfamily; Region: ERF; pfam04404 491077006144 Protein of unknown function (DUF968); Region: DUF968; pfam06147 491077006145 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 491077006146 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 491077006147 dimer interface [polypeptide binding]; other site 491077006148 ssDNA binding site [nucleotide binding]; other site 491077006149 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491077006150 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 491077006151 non-specific DNA interactions [nucleotide binding]; other site 491077006152 DNA binding site [nucleotide binding] 491077006153 sequence specific DNA binding site [nucleotide binding]; other site 491077006154 putative cAMP binding site [chemical binding]; other site 491077006155 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 491077006156 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077006157 Walker A motif; other site 491077006158 ATP binding site [chemical binding]; other site 491077006159 Walker B motif; other site 491077006160 arginine finger; other site 491077006161 PADR1 (NUC008) domain; Region: PADR1; pfam08063 491077006162 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 491077006163 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077006164 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077006165 Integrase core domain; Region: rve; pfam00665 491077006166 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 491077006167 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 491077006168 Protein of unknown function (DUF563); Region: DUF563; cl15705 491077006169 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 491077006170 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 491077006171 active site 491077006172 AAA domain; Region: AAA_33; pfam13671 491077006173 AAA domain; Region: AAA_17; pfam13207 491077006174 Phage terminase, small subunit; Region: Terminase_4; pfam05119 491077006175 Phage Terminase; Region: Terminase_1; pfam03354 491077006176 Phage-related protein [Function unknown]; Region: COG4695; cl01923 491077006177 Phage portal protein; Region: Phage_portal; pfam04860 491077006178 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 491077006179 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 491077006180 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 491077006181 Phage capsid family; Region: Phage_capsid; pfam05065 491077006182 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 491077006183 oligomerization interface [polypeptide binding]; other site 491077006184 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 491077006185 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 491077006186 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 491077006187 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 491077006188 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 491077006189 No apical meristem-associated C-terminal domain; Region: NAM-associated; pfam14303 491077006190 Phage tail protein; Region: Sipho_tail; pfam05709 491077006191 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 491077006192 Peptidase family M23; Region: Peptidase_M23; pfam01551 491077006193 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 491077006194 Domain of unknown function (DUF2479); Region: DUF2479; pfam10651 491077006195 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 491077006196 Phage holin protein (Holin_LLH); Region: Holin_LLH; cl09890 491077006197 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 491077006198 active site 491077006199 Bacterial SH3 domain; Region: SH3_5; pfam08460 491077006200 fructuronate transporter; Provisional; Region: PRK10034; cl15264 491077006201 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 491077006202 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 491077006203 N- and C-terminal domain interface [polypeptide binding]; other site 491077006204 active site 491077006205 catalytic site [active] 491077006206 metal binding site [ion binding]; metal-binding site 491077006207 carbohydrate binding site [chemical binding]; other site 491077006208 ATP binding site [chemical binding]; other site 491077006209 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 491077006210 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491077006211 Coenzyme A binding pocket [chemical binding]; other site 491077006212 Protein of unknown function (DUF805); Region: DUF805; pfam05656 491077006213 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077006214 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077006215 Integrase core domain; Region: rve; pfam00665 491077006216 GIY-YIG domain of uncharacterized bacterial protein structurally related to COG3410; Region: GIY-YIG_COG3410; cd10439 491077006217 GIY-YIG motif/motif A; other site 491077006218 putative active site [active] 491077006219 putative metal binding site [ion binding]; other site 491077006220 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 491077006221 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077006222 Integrase core domain; Region: rve; pfam00665 491077006223 Uncharacterized conserved protein [Function unknown]; Region: COG3410 491077006224 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 491077006225 homodimer interface [polypeptide binding]; other site 491077006226 putative active site [active] 491077006227 catalytic site [active] 491077006228 Transposase IS200 like; Region: Y1_Tnp; pfam01797 491077006229 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 491077006230 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 491077006231 Probable transposase; Region: OrfB_IS605; pfam01385 491077006232 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 491077006233 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077006234 Walker A motif; other site 491077006235 ATP binding site [chemical binding]; other site 491077006236 Walker B motif; other site 491077006237 arginine finger; other site 491077006238 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 491077006239 Integrase core domain; Region: rve; pfam00665 491077006240 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077006241 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077006242 Integrase core domain; Region: rve; pfam00665 491077006243 Probable transposase; Region: OrfB_IS605; pfam01385 491077006244 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 491077006245 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 491077006246 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 491077006247 active site 491077006248 tetramer interface [polypeptide binding]; other site 491077006249 Ion transport protein; Region: Ion_trans; pfam00520 491077006250 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 491077006251 Domain of unknown function (DUF373); Region: DUF373; cl12079 491077006252 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 491077006253 D-galactonate transporter; Region: 2A0114; TIGR00893 491077006254 putative substrate translocation pore; other site 491077006255 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 491077006256 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 491077006257 DNA binding residues [nucleotide binding] 491077006258 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 491077006259 CoenzymeA binding site [chemical binding]; other site 491077006260 subunit interaction site [polypeptide binding]; other site 491077006261 PHB binding site; other site 491077006262 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 491077006263 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 491077006264 substrate binding site [chemical binding]; other site 491077006265 oxyanion hole (OAH) forming residues; other site 491077006266 trimer interface [polypeptide binding]; other site 491077006267 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 491077006268 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 491077006269 acyl-activating enzyme (AAE) consensus motif; other site 491077006270 putative AMP binding site [chemical binding]; other site 491077006271 putative active site [active] 491077006272 putative CoA binding site [chemical binding]; other site 491077006273 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077006274 Integrase core domain; Region: rve; pfam00665 491077006275 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 491077006276 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 491077006277 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 491077006278 ferrous iron transporter FeoB; Region: feoB; TIGR00437 491077006279 G1 box; other site 491077006280 GTP/Mg2+ binding site [chemical binding]; other site 491077006281 Switch I region; other site 491077006282 G2 box; other site 491077006283 G3 box; other site 491077006284 Switch II region; other site 491077006285 G4 box; other site 491077006286 G5 box; other site 491077006287 Nucleoside recognition; Region: Gate; pfam07670 491077006288 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 491077006289 FeoA domain; Region: FeoA; pfam04023 491077006290 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 491077006291 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 491077006292 Walker A/P-loop; other site 491077006293 ATP binding site [chemical binding]; other site 491077006294 Q-loop/lid; other site 491077006295 ABC transporter signature motif; other site 491077006296 Walker B; other site 491077006297 D-loop; other site 491077006298 H-loop/switch region; other site 491077006299 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 491077006300 FeS assembly protein SufD; Region: sufD; TIGR01981 491077006301 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 491077006302 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 491077006303 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491077006304 catalytic residue [active] 491077006305 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 491077006306 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 491077006307 trimerization site [polypeptide binding]; other site 491077006308 active site 491077006309 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 491077006310 FeS assembly protein SufB; Region: sufB; TIGR01980 491077006311 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 491077006312 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 491077006313 non-specific DNA binding site [nucleotide binding]; other site 491077006314 salt bridge; other site 491077006315 sequence-specific DNA binding site [nucleotide binding]; other site 491077006316 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 491077006317 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 491077006318 active site 491077006319 phosphorylation site [posttranslational modification] 491077006320 intermolecular recognition site; other site 491077006321 dimerization interface [polypeptide binding]; other site 491077006322 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 491077006323 DNA binding residues [nucleotide binding] 491077006324 dimerization interface [polypeptide binding]; other site 491077006325 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077006326 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077006327 Integrase core domain; Region: rve; pfam00665 491077006328 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 491077006329 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 491077006330 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 491077006331 active site 491077006332 motif I; other site 491077006333 motif II; other site 491077006334 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 491077006335 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 491077006336 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 491077006337 S-adenosylmethionine binding site [chemical binding]; other site 491077006338 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 491077006339 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 491077006340 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 491077006341 potential frameshift: common BLAST hit: gi|148544133|ref|YP_001271503.1| signal transduction histidine kinase, LytS 491077006342 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 491077006343 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 491077006344 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 491077006345 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 491077006346 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491077006347 NAD binding site [chemical binding]; other site 491077006348 dimer interface [polypeptide binding]; other site 491077006349 substrate binding site [chemical binding]; other site 491077006350 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 491077006351 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 491077006352 nucleotide binding site [chemical binding]; other site 491077006353 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491077006354 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491077006355 DNA binding site [nucleotide binding] 491077006356 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 491077006357 putative dimerization interface [polypeptide binding]; other site 491077006358 putative ligand binding site [chemical binding]; other site 491077006359 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 491077006360 Melibiase; Region: Melibiase; pfam02065 491077006361 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 491077006362 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 491077006363 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 491077006364 Integrase core domain; Region: rve; pfam00665 491077006365 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 491077006366 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 491077006367 Walker A motif; other site 491077006368 ATP binding site [chemical binding]; other site 491077006369 Walker B motif; other site 491077006370 arginine finger; other site 491077006371 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 491077006372 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 491077006373 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 491077006374 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 491077006375 homotetramer interface [polypeptide binding]; other site 491077006376 FMN binding site [chemical binding]; other site 491077006377 homodimer contacts [polypeptide binding]; other site 491077006378 putative active site [active] 491077006379 putative substrate binding site [chemical binding]; other site 491077006380 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 491077006381 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 491077006382 diphosphomevalonate decarboxylase; Region: PLN02407 491077006383 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 491077006384 diphosphomevalonate decarboxylase; Region: PLN02407 491077006385 mevalonate kinase; Region: mevalon_kin; TIGR00549 491077006386 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 491077006387 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 491077006388 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 491077006389 active site 491077006390 catalytic site [active] 491077006391 substrate binding site [chemical binding]; other site 491077006392 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 491077006393 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 491077006394 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 491077006395 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 491077006396 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 491077006397 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 491077006398 EamA-like transporter family; Region: EamA; pfam00892 491077006399 EamA-like transporter family; Region: EamA; pfam00892 491077006400 Transglycosylase; Region: Transgly; pfam00912 491077006401 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 491077006402 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 491077006403 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 491077006404 hypothetical protein; Provisional; Region: PRK13660 491077006405 cell division protein GpsB; Provisional; Region: PRK14127 491077006406 DivIVA domain; Region: DivI1A_domain; TIGR03544 491077006407 NrdI Flavodoxin like; Region: Flavodoxin_NdrI; cl17293 491077006408 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 491077006409 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 491077006410 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 491077006411 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 491077006412 RNA/DNA hybrid binding site [nucleotide binding]; other site 491077006413 active site 491077006414 lipoprotein signal peptidase; Provisional; Region: PRK14797 491077006415 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 491077006416 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 491077006417 RNA binding surface [nucleotide binding]; other site 491077006418 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 491077006419 active site 491077006420 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 491077006421 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 491077006422 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 491077006423 catalytic site [active] 491077006424 subunit interface [polypeptide binding]; other site 491077006425 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 491077006426 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 491077006427 ATP-grasp domain; Region: ATP-grasp_4; cl17255 491077006428 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 491077006429 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 491077006430 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 491077006431 Domain of unknown function (DUF814); Region: DUF814; pfam05670 491077006432 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077006433 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077006434 Integrase core domain; Region: rve; pfam00665 491077006435 EDD domain protein, DegV family; Region: DegV; TIGR00762 491077006436 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 491077006437 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 491077006438 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 491077006439 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 491077006440 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 491077006441 Ligand binding site; other site 491077006442 metal-binding site 491077006443 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 491077006444 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 491077006445 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491077006446 Coenzyme A binding pocket [chemical binding]; other site 491077006447 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 491077006448 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 491077006449 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 491077006450 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 491077006451 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 491077006452 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491077006453 active site 491077006454 catalytic tetrad [active] 491077006455 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491077006456 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491077006457 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 491077006458 dimerization interface [polypeptide binding]; other site 491077006459 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077006460 Integrase core domain; Region: rve; pfam00665 491077006461 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 491077006462 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 491077006463 Protein of unknown function (DUF441); Region: DUF441; pfam04284 491077006464 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 491077006465 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 491077006466 putative substrate translocation pore; other site 491077006467 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 491077006468 Penicillinase repressor; Region: Pencillinase_R; pfam03965 491077006469 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 491077006470 Domain of unknown function DUF21; Region: DUF21; pfam01595 491077006471 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 491077006472 Transporter associated domain; Region: CorC_HlyC; smart01091 491077006473 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 491077006474 ABC1 family; Region: ABC1; cl17513 491077006475 Uncharacterized conserved protein [Function unknown]; Region: COG1434 491077006476 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 491077006477 putative active site [active] 491077006478 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 491077006479 dimer interface [polypeptide binding]; other site 491077006480 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491077006481 metal binding site [ion binding]; metal-binding site 491077006482 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 491077006483 CrcB-like protein; Region: CRCB; pfam02537 491077006484 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491077006485 Walker A/P-loop; other site 491077006486 ATP binding site [chemical binding]; other site 491077006487 Q-loop/lid; other site 491077006488 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491077006489 ABC transporter signature motif; other site 491077006490 Walker B; other site 491077006491 D-loop; other site 491077006492 H-loop/switch region; other site 491077006493 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491077006494 AAA domain; Region: AAA_21; pfam13304 491077006495 Walker A/P-loop; other site 491077006496 ATP binding site [chemical binding]; other site 491077006497 Q-loop/lid; other site 491077006498 ABC transporter signature motif; other site 491077006499 Walker B; other site 491077006500 D-loop; other site 491077006501 H-loop/switch region; other site 491077006502 Uncharacterized conserved protein [Function unknown]; Region: COG0398 491077006503 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 491077006504 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 491077006505 Uncharacterized conserved protein [Function unknown]; Region: COG3410 491077006506 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 491077006507 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 491077006508 TPP-binding site; other site 491077006509 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 491077006510 PYR/PP interface [polypeptide binding]; other site 491077006511 dimer interface [polypeptide binding]; other site 491077006512 TPP binding site [chemical binding]; other site 491077006513 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 491077006514 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 491077006515 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 491077006516 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 491077006517 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 491077006518 putative active site [active] 491077006519 catalytic site [active] 491077006520 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 491077006521 Walker A motif; other site 491077006522 ATP binding site [chemical binding]; other site 491077006523 Walker B motif; other site 491077006524 arginine finger; other site 491077006525 Protein of unknown function (DUF454); Region: DUF454; cl01063 491077006526 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 491077006527 Predicted membrane protein [Function unknown]; Region: COG2323 491077006528 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 491077006529 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 491077006530 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 491077006531 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 491077006532 active site 491077006533 motif I; other site 491077006534 motif II; other site 491077006535 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 491077006536 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 491077006537 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 491077006538 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 491077006539 salt bridge; other site 491077006540 non-specific DNA binding site [nucleotide binding]; other site 491077006541 sequence-specific DNA binding site [nucleotide binding]; other site 491077006542 potential frameshift: common BLAST hit: gi|148544206|ref|YP_001271576.1| alpha/beta hydrolase domain-containing protein 491077006543 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 491077006544 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 491077006545 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077006546 Helix-turn-helix domain; Region: HTH_38; pfam13936 491077006547 Integrase core domain; Region: rve; pfam00665 491077006548 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 491077006549 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 491077006550 catalytic residues [active] 491077006551 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 491077006552 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077006553 Integrase core domain; Region: rve; pfam00665 491077006554 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 491077006555 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077006556 putative active site [active] 491077006557 putative NTP binding site [chemical binding]; other site 491077006558 putative nucleic acid binding site [nucleotide binding]; other site 491077006559 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077006560 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 491077006561 Transposase; Region: DDE_Tnp_ISL3; pfam01610 491077006562 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 491077006563 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 491077006564 Walker A/P-loop; other site 491077006565 ATP binding site [chemical binding]; other site 491077006566 Q-loop/lid; other site 491077006567 ABC transporter signature motif; other site 491077006568 Walker B; other site 491077006569 D-loop; other site 491077006570 H-loop/switch region; other site 491077006571 Putative exporter of polyketide antibiotics [Cell envelope biogenesis, outer membrane]; Region: TnrB3; COG3559 491077006572 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491077006573 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491077006574 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 491077006575 multiple promoter invertase; Provisional; Region: mpi; PRK13413 491077006576 catalytic residues [active] 491077006577 catalytic nucleophile [active] 491077006578 Presynaptic Site I dimer interface [polypeptide binding]; other site 491077006579 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 491077006580 Synaptic Flat tetramer interface [polypeptide binding]; other site 491077006581 Synaptic Site I dimer interface [polypeptide binding]; other site 491077006582 DNA binding site [nucleotide binding] 491077006583 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; cl17393 491077006584 DNA-binding interface [nucleotide binding]; DNA binding site 491077006585 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 491077006586 Integrase core domain; Region: rve; pfam00665 491077006587 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 491077006588 Aminoglycoside-2''-adenylyltransferase; Region: Aminoglyc_resit; pfam10706 491077006589 CAAX protease self-immunity; Region: Abi; pfam02517 491077006590 RelB antitoxin; Region: RelB; cl01171 491077006591 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 491077006592 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 491077006593 active site 491077006594 DNA binding site [nucleotide binding] 491077006595 Int/Topo IB signature motif; other site 491077006596 Replication protein; Region: Rep_1; cl02412 491077006597 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 491077006598 DNA binding residues [nucleotide binding] 491077006599 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 491077006600 non-specific DNA binding site [nucleotide binding]; other site 491077006601 salt bridge; other site 491077006602 sequence-specific DNA binding site [nucleotide binding]; other site 491077006603 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 491077006604 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 491077006605 active site 491077006606 DNA binding site [nucleotide binding] 491077006607 Int/Topo IB signature motif; other site 491077006608 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 491077006609 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 491077006610 G1 box; other site 491077006611 putative GEF interaction site [polypeptide binding]; other site 491077006612 GTP/Mg2+ binding site [chemical binding]; other site 491077006613 Switch I region; other site 491077006614 G2 box; other site 491077006615 G3 box; other site 491077006616 Switch II region; other site 491077006617 G4 box; other site 491077006618 G5 box; other site 491077006619 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 491077006620 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 inhibit...; Region: Tet_like_IV; cd01684 491077006621 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...; Region: Tet_C; cd03711 491077006622 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 491077006623 Sodium Bile acid symporter family; Region: SBF; cl17470 491077006624 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 491077006625 dimerization interface [polypeptide binding]; other site 491077006626 putative DNA binding site [nucleotide binding]; other site 491077006627 putative Zn2+ binding site [ion binding]; other site 491077006628 potential frameshift: common BLAST hit: gi|325956240|ref|YP_004286850.1| arsenate reductase 491077006629 Low molecular weight phosphatase family; Region: LMWPc; cl00105 491077006630 Low molecular weight phosphatase family; Region: LMWPc; cl00105 491077006631 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 491077006632 arsenical-resistance protein; Region: acr3; TIGR00832 491077006633 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 491077006634 dimerization interface [polypeptide binding]; other site 491077006635 putative DNA binding site [nucleotide binding]; other site 491077006636 putative Zn2+ binding site [ion binding]; other site 491077006637 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 491077006638 Initiator Replication protein; Region: Rep_3; pfam01051 491077006639 Mrr N-terminal domain; Region: Mrr_N; pfam14338 491077006640 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 491077006641 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 491077006642 active site 491077006643 DNA binding site [nucleotide binding] 491077006644 Int/Topo IB signature motif; other site 491077006645 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 491077006646 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491077006647 putative active site [active] 491077006648 putative NTP binding site [chemical binding]; other site 491077006649 putative nucleic acid binding site [nucleotide binding]; other site 491077006650 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 491077006651 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 491077006652 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 491077006653 P-loop; other site 491077006654 Magnesium ion binding site [ion binding]; other site 491077006655 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 491077006656 Magnesium ion binding site [ion binding]; other site 491077006657 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 491077006658 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 491077006659 DNA methylase; Region: N6_N4_Mtase; pfam01555 491077006660 DNA methylase; Region: N6_N4_Mtase; pfam01555 491077006661 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 491077006662 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 491077006663 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 491077006664 ATP binding site [chemical binding]; other site 491077006665 putative Mg++ binding site [ion binding]; other site 491077006666 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 491077006667 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 491077006668 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 491077006669 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 491077006670 motif II; other site 491077006671 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 491077006672 Penicillinase repressor; Region: Pencillinase_R; pfam03965 491077006673 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 491077006674 dimerization interface [polypeptide binding]; other site 491077006675 putative DNA binding site [nucleotide binding]; other site 491077006676 putative Zn2+ binding site [ion binding]; other site 491077006677 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 491077006678 Cadmium resistance transporter; Region: Cad; pfam03596