-- dump date 20140619_042313 -- class Genbank::misc_feature -- table misc_feature_note -- id note 699246000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 699246000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 699246000003 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 699246000004 Walker A motif; other site 699246000005 ATP binding site [chemical binding]; other site 699246000006 Walker B motif; other site 699246000007 arginine finger; other site 699246000008 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 699246000009 DnaA box-binding interface [nucleotide binding]; other site 699246000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 699246000011 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 699246000012 putative DNA binding surface [nucleotide binding]; other site 699246000013 dimer interface [polypeptide binding]; other site 699246000014 beta-clamp/clamp loader binding surface; other site 699246000015 beta-clamp/translesion DNA polymerase binding surface; other site 699246000016 recombination protein F; Reviewed; Region: recF; PRK00064 699246000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246000018 Walker A/P-loop; other site 699246000019 ATP binding site [chemical binding]; other site 699246000020 Q-loop/lid; other site 699246000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246000022 ABC transporter signature motif; other site 699246000023 Walker B; other site 699246000024 D-loop; other site 699246000025 H-loop/switch region; other site 699246000026 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 699246000027 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 699246000028 ATP binding site [chemical binding]; other site 699246000029 Mg2+ binding site [ion binding]; other site 699246000030 G-X-G motif; other site 699246000031 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 699246000032 anchoring element; other site 699246000033 dimer interface [polypeptide binding]; other site 699246000034 ATP binding site [chemical binding]; other site 699246000035 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 699246000036 active site 699246000037 putative metal-binding site [ion binding]; other site 699246000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 699246000039 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 699246000040 ParB-like nuclease domain; Region: ParBc; pfam02195 699246000041 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; cl17257 699246000042 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 699246000043 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 699246000044 P-loop; other site 699246000045 Magnesium ion binding site [ion binding]; other site 699246000046 Protein of unknown function (DUF2663); Region: DUF2663; pfam10864 699246000047 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 699246000048 putative active site [active] 699246000049 GIY-YIG motif/motif A; other site 699246000050 putative metal binding site [ion binding]; other site 699246000051 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 699246000052 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 699246000053 S-adenosylmethionine binding site [chemical binding]; other site 699246000054 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_29; cd04688 699246000055 nudix motif; other site 699246000056 PBP superfamily domain; Region: PBP_like_2; cl17296 699246000057 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 699246000058 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 699246000059 ABC-ATPase subunit interface; other site 699246000060 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 699246000061 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 699246000062 dimer interface [polypeptide binding]; other site 699246000063 conserved gate region; other site 699246000064 putative PBP binding loops; other site 699246000065 ABC-ATPase subunit interface; other site 699246000066 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 699246000067 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 699246000068 Walker A/P-loop; other site 699246000069 ATP binding site [chemical binding]; other site 699246000070 Q-loop/lid; other site 699246000071 ABC transporter signature motif; other site 699246000072 Walker B; other site 699246000073 D-loop; other site 699246000074 H-loop/switch region; other site 699246000075 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 699246000076 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 699246000077 active site 699246000078 phosphorylation site [posttranslational modification] 699246000079 intermolecular recognition site; other site 699246000080 dimerization interface [polypeptide binding]; other site 699246000081 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 699246000082 DNA binding site [nucleotide binding] 699246000083 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 699246000084 dimer interface [polypeptide binding]; other site 699246000085 phosphorylation site [posttranslational modification] 699246000086 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 699246000087 ATP binding site [chemical binding]; other site 699246000088 Mg2+ binding site [ion binding]; other site 699246000089 G-X-G motif; other site 699246000090 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 699246000091 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 699246000092 Coenzyme A binding pocket [chemical binding]; other site 699246000093 A new structural DNA glycosylase; Region: AlkD_like; cd06561 699246000094 active site 699246000095 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 699246000096 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 699246000097 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246000098 Walker A/P-loop; other site 699246000099 ATP binding site [chemical binding]; other site 699246000100 Q-loop/lid; other site 699246000101 ABC transporter signature motif; other site 699246000102 Walker B; other site 699246000103 D-loop; other site 699246000104 H-loop/switch region; other site 699246000105 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 699246000106 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246000107 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 699246000108 Walker A/P-loop; other site 699246000109 ATP binding site [chemical binding]; other site 699246000110 Q-loop/lid; other site 699246000111 ABC transporter signature motif; other site 699246000112 Walker B; other site 699246000113 D-loop; other site 699246000114 H-loop/switch region; other site 699246000115 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 699246000116 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 699246000117 Walker A/P-loop; other site 699246000118 ATP binding site [chemical binding]; other site 699246000119 Q-loop/lid; other site 699246000120 ABC transporter signature motif; other site 699246000121 Walker B; other site 699246000122 D-loop; other site 699246000123 H-loop/switch region; other site 699246000124 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 699246000125 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 699246000126 catalytic residues [active] 699246000127 4Fe-4S binding domain; Region: Fer4_5; pfam12801 699246000128 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 699246000129 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 699246000130 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 699246000131 active site 699246000132 phosphorylation site [posttranslational modification] 699246000133 intermolecular recognition site; other site 699246000134 dimerization interface [polypeptide binding]; other site 699246000135 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 699246000136 DNA binding site [nucleotide binding] 699246000137 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 699246000138 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 699246000139 dimer interface [polypeptide binding]; other site 699246000140 phosphorylation site [posttranslational modification] 699246000141 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 699246000142 ATP binding site [chemical binding]; other site 699246000143 Mg2+ binding site [ion binding]; other site 699246000144 G-X-G motif; other site 699246000145 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 699246000146 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 699246000147 active site 699246000148 Zn binding site [ion binding]; other site 699246000149 Orbivirus outer capsid protein VP5; Region: Orbi_VP5; pfam00901 699246000150 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 699246000151 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 699246000152 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 699246000153 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 699246000154 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 699246000155 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 699246000156 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 699246000157 active site 699246000158 NTP binding site [chemical binding]; other site 699246000159 metal binding triad [ion binding]; metal-binding site 699246000160 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 699246000161 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 699246000162 putative active site [active] 699246000163 metal binding site [ion binding]; metal-binding site 699246000164 Preprotein translocase SecG subunit; Region: SecG; cl09123 699246000165 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 699246000166 RNB domain; Region: RNB; pfam00773 699246000167 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 699246000168 RNA binding site [nucleotide binding]; other site 699246000169 PTS HPr component phosphorylation site; Region: PTS-HPr; pfam00381 699246000170 regulatory protein interface [polypeptide binding]; other site 699246000171 regulatory phosphorylation site [posttranslational modification]; other site 699246000172 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 699246000173 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 699246000174 hypothetical protein; Provisional; Region: PRK05473 699246000175 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 699246000176 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 699246000177 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 699246000178 CAAX protease self-immunity; Region: Abi; pfam02517 699246000179 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 699246000180 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 699246000181 active site 699246000182 motif I; other site 699246000183 motif II; other site 699246000184 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 699246000185 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 699246000186 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 699246000187 Major Facilitator Superfamily; Region: MFS_1; pfam07690 699246000188 putative substrate translocation pore; other site 699246000189 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 699246000190 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 699246000191 Probable transposase; Region: OrfB_IS605; pfam01385 699246000192 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 699246000193 Transposase IS200 like; Region: Y1_Tnp; pfam01797 699246000194 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 699246000195 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 699246000196 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 699246000197 motif II; other site 699246000198 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 699246000199 catalytic motif [active] 699246000200 Zn binding site [ion binding]; other site 699246000201 Transglycosylase; Region: Transgly; pfam00912 699246000202 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 699246000203 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 699246000204 FemAB family; Region: FemAB; pfam02388 699246000205 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 699246000206 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 699246000207 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 699246000208 TM-ABC transporter signature motif; other site 699246000209 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 699246000210 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246000211 Walker A/P-loop; other site 699246000212 ATP binding site [chemical binding]; other site 699246000213 Q-loop/lid; other site 699246000214 ABC transporter signature motif; other site 699246000215 Walker B; other site 699246000216 D-loop; other site 699246000217 H-loop/switch region; other site 699246000218 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 699246000219 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 699246000220 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 699246000221 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 699246000222 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 699246000223 PYR/PP interface [polypeptide binding]; other site 699246000224 dimer interface [polypeptide binding]; other site 699246000225 TPP binding site [chemical binding]; other site 699246000226 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 699246000227 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 699246000228 TPP-binding site [chemical binding]; other site 699246000229 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 699246000230 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 699246000231 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 699246000232 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 699246000233 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 699246000234 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 699246000235 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 699246000236 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 699246000237 Metal-binding active site; metal-binding site 699246000238 Transcriptional regulators [Transcription]; Region: PurR; COG1609 699246000239 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 699246000240 DNA binding site [nucleotide binding] 699246000241 domain linker motif; other site 699246000242 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 699246000243 dimerization interface [polypeptide binding]; other site 699246000244 ligand binding site [chemical binding]; other site 699246000245 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 699246000246 glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PRK04207 699246000247 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl17742 699246000248 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 699246000249 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 699246000250 Phosphoglycerate kinase; Region: PGK; pfam00162 699246000251 substrate binding site [chemical binding]; other site 699246000252 hinge regions; other site 699246000253 ADP binding site [chemical binding]; other site 699246000254 catalytic site [active] 699246000255 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 699246000256 TPP-binding site [chemical binding]; other site 699246000257 dimer interface [polypeptide binding]; other site 699246000258 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 699246000259 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 699246000260 PYR/PP interface [polypeptide binding]; other site 699246000261 dimer interface [polypeptide binding]; other site 699246000262 TPP binding site [chemical binding]; other site 699246000263 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 699246000264 KduI/IolB family; Region: KduI; cl01508 699246000265 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 699246000266 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 699246000267 dimer interface [polypeptide binding]; other site 699246000268 active site 699246000269 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 699246000270 catalytic residues [active] 699246000271 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 699246000272 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 699246000273 agmatinase; Region: agmatinase; TIGR01230 699246000274 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 699246000275 putative active site [active] 699246000276 Mn binding site [ion binding]; other site 699246000277 spermidine synthase; Provisional; Region: PRK00811 699246000278 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 699246000279 S-adenosylmethionine binding site [chemical binding]; other site 699246000280 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 699246000281 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 699246000282 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 699246000283 catalytic residue [active] 699246000284 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 699246000285 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 699246000286 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 699246000287 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 699246000288 motif II; other site 699246000289 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 699246000290 putative deacylase active site [active] 699246000291 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 699246000292 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 699246000293 homotrimer interaction site [polypeptide binding]; other site 699246000294 putative active site [active] 699246000295 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 699246000296 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 699246000297 putative substrate translocation pore; other site 699246000298 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 699246000299 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 699246000300 active site 699246000301 FMN binding site [chemical binding]; other site 699246000302 substrate binding site [chemical binding]; other site 699246000303 putative catalytic residue [active] 699246000304 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 699246000305 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 699246000306 active site 699246000307 phosphorylation site [posttranslational modification] 699246000308 intermolecular recognition site; other site 699246000309 dimerization interface [polypeptide binding]; other site 699246000310 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 699246000311 DNA binding site [nucleotide binding] 699246000312 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 699246000313 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 699246000314 ATP binding site [chemical binding]; other site 699246000315 Mg2+ binding site [ion binding]; other site 699246000316 G-X-G motif; other site 699246000317 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 699246000318 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246000319 Walker A/P-loop; other site 699246000320 ATP binding site [chemical binding]; other site 699246000321 ABC transporter signature motif; other site 699246000322 Walker B; other site 699246000323 D-loop; other site 699246000324 H-loop/switch region; other site 699246000325 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 699246000326 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 699246000327 Zn binding site [ion binding]; other site 699246000328 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 699246000329 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 699246000330 Animal heme peroxidases and related proteins; Region: An_peroxidase_like; cl14561 699246000331 Peptidase family C69; Region: Peptidase_C69; pfam03577 699246000332 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 699246000333 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 699246000334 catalytic residues [active] 699246000335 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 699246000336 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 699246000337 catalytic residues [active] 699246000338 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 699246000339 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 699246000340 substrate-cofactor binding pocket; other site 699246000341 pyridoxal 5'-phosphate binding site [chemical binding]; other site 699246000342 catalytic residue [active] 699246000343 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 699246000344 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 699246000345 dimerization interface [polypeptide binding]; other site 699246000346 DPS ferroxidase diiron center [ion binding]; other site 699246000347 ion pore; other site 699246000348 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 699246000349 non-specific DNA binding site [nucleotide binding]; other site 699246000350 salt bridge; other site 699246000351 sequence-specific DNA binding site [nucleotide binding]; other site 699246000352 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 699246000353 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 699246000354 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 699246000355 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 699246000356 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 699246000357 Substrate binding site; other site 699246000358 Mg++ binding site; other site 699246000359 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 699246000360 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 699246000361 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 699246000362 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 699246000363 Predicted permeases [General function prediction only]; Region: COG0701 699246000364 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 699246000365 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 699246000366 enolase; Provisional; Region: eno; PRK00077 699246000367 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 699246000368 dimer interface [polypeptide binding]; other site 699246000369 metal binding site [ion binding]; metal-binding site 699246000370 substrate binding pocket [chemical binding]; other site 699246000371 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 699246000372 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 699246000373 active site 699246000374 metal binding site [ion binding]; metal-binding site 699246000375 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 699246000376 active site 699246000377 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 699246000378 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 699246000379 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 699246000380 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 699246000381 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 699246000382 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 699246000383 active site 699246000384 homodimer interface [polypeptide binding]; other site 699246000385 pullulanase, type I; Region: pulA_typeI; TIGR02104 699246000386 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 699246000387 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 699246000388 Ca binding site [ion binding]; other site 699246000389 active site 699246000390 catalytic site [active] 699246000391 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 699246000392 Na2 binding site [ion binding]; other site 699246000393 putative substrate binding site 1 [chemical binding]; other site 699246000394 Na binding site 1 [ion binding]; other site 699246000395 putative substrate binding site 2 [chemical binding]; other site 699246000396 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 699246000397 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 699246000398 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 699246000399 catalytic residue [active] 699246000400 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 699246000401 RelB antitoxin; Region: RelB; cl01171 699246000402 Sulphur transport; Region: Sulf_transp; pfam04143 699246000403 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 699246000404 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 699246000405 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 699246000406 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 699246000407 active site residue [active] 699246000408 Sulphur transport; Region: Sulf_transp; pfam04143 699246000409 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 699246000410 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 699246000411 putative PBP binding loops; other site 699246000412 dimer interface [polypeptide binding]; other site 699246000413 ABC-ATPase subunit interface; other site 699246000414 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 699246000415 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 699246000416 substrate binding pocket [chemical binding]; other site 699246000417 membrane-bound complex binding site; other site 699246000418 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 699246000419 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 699246000420 Walker A/P-loop; other site 699246000421 ATP binding site [chemical binding]; other site 699246000422 Q-loop/lid; other site 699246000423 ABC transporter signature motif; other site 699246000424 Walker B; other site 699246000425 D-loop; other site 699246000426 H-loop/switch region; other site 699246000427 Transcriptional regulator [Transcription]; Region: LysR; COG0583 699246000428 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 699246000429 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 699246000430 dimerization interface [polypeptide binding]; other site 699246000431 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 699246000432 active site 699246000433 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 699246000434 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 699246000435 CTP:phosphocholine cytidylyltransferase involved in choline phosphorylation for cell surface LPS epitopes [Cell envelope biogenesis, outer membrane]; Region: LicC; COG4750 699246000436 Phosphotransferase enzyme family; Region: APH; pfam01636 699246000437 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 699246000438 active site 699246000439 ATP binding site [chemical binding]; other site 699246000440 substrate binding site [chemical binding]; other site 699246000441 dimer interface [polypeptide binding]; other site 699246000442 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 699246000443 active site 699246000444 metal-binding site 699246000445 ambiguous bases; PCR results inconclusive for 17 versus 18 T's 699246000446 putative transposase OrfB; Reviewed; Region: PHA02517 699246000447 HTH-like domain; Region: HTH_21; pfam13276 699246000448 Integrase core domain; Region: rve; pfam00665 699246000449 Integrase core domain; Region: rve_2; pfam13333 699246000450 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 699246000451 RelB antitoxin; Region: RelB; cl01171 699246000452 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 699246000453 sequence-specific DNA binding site [nucleotide binding]; other site 699246000454 salt bridge; other site 699246000455 Domain of unknown function (DUF955); Region: DUF955; cl01076 699246000456 asparagine synthetase AsnA; Provisional; Region: PRK05425 699246000457 motif 1; other site 699246000458 dimer interface [polypeptide binding]; other site 699246000459 active site 699246000460 motif 2; other site 699246000461 motif 3; other site 699246000462 Uncharacterized conserved protein [Function unknown]; Region: COG0062 699246000463 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 699246000464 putative substrate binding site [chemical binding]; other site 699246000465 putative ATP binding site [chemical binding]; other site 699246000466 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 699246000467 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 699246000468 active site 699246000469 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 699246000470 dimer interface [polypeptide binding]; other site 699246000471 substrate binding site [chemical binding]; other site 699246000472 catalytic residues [active] 699246000473 VanZ like family; Region: VanZ; cl01971 699246000474 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 699246000475 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 699246000476 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 699246000477 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246000478 Walker A/P-loop; other site 699246000479 ATP binding site [chemical binding]; other site 699246000480 Q-loop/lid; other site 699246000481 ABC transporter signature motif; other site 699246000482 Walker B; other site 699246000483 D-loop; other site 699246000484 H-loop/switch region; other site 699246000485 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 699246000486 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 699246000487 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 699246000488 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 699246000489 Peptidase family M23; Region: Peptidase_M23; pfam01551 699246000490 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 699246000491 C-terminal peptidase (prc); Region: prc; TIGR00225 699246000492 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 699246000493 protein binding site [polypeptide binding]; other site 699246000494 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 699246000495 Catalytic dyad [active] 699246000496 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 699246000497 S-adenosylmethionine binding site [chemical binding]; other site 699246000498 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 699246000499 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 699246000500 dimerization interface [polypeptide binding]; other site 699246000501 domain crossover interface; other site 699246000502 redox-dependent activation switch; other site 699246000503 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 699246000504 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 699246000505 SLBB domain; Region: SLBB; pfam10531 699246000506 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 699246000507 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 699246000508 FMN-binding domain; Region: FMN_bind; cl01081 699246000509 electron transport complex RsxE subunit; Provisional; Region: PRK12405 699246000510 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 699246000511 ferredoxin; Provisional; Region: PRK08764 699246000512 Putative Fe-S cluster; Region: FeS; cl17515 699246000513 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 699246000514 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 699246000515 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 699246000516 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 699246000517 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 699246000518 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 699246000519 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 699246000520 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 699246000521 TM2 domain; Region: TM2; cl00984 699246000522 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 699246000523 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 699246000524 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 699246000525 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 699246000526 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 699246000527 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 699246000528 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 699246000529 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 699246000530 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 699246000531 protein-rRNA interface [nucleotide binding]; other site 699246000532 putative translocon binding site; other site 699246000533 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 699246000534 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 699246000535 G-X-X-G motif; other site 699246000536 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 699246000537 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 699246000538 23S rRNA interface [nucleotide binding]; other site 699246000539 5S rRNA interface [nucleotide binding]; other site 699246000540 putative antibiotic binding site [chemical binding]; other site 699246000541 L25 interface [polypeptide binding]; other site 699246000542 L27 interface [polypeptide binding]; other site 699246000543 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 699246000544 putative translocon interaction site; other site 699246000545 23S rRNA interface [nucleotide binding]; other site 699246000546 signal recognition particle (SRP54) interaction site; other site 699246000547 L23 interface [polypeptide binding]; other site 699246000548 trigger factor interaction site; other site 699246000549 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 699246000550 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 699246000551 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 699246000552 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 699246000553 RNA binding site [nucleotide binding]; other site 699246000554 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 699246000555 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 699246000556 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 699246000557 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 699246000558 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 699246000559 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 699246000560 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 699246000561 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 699246000562 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 699246000563 5S rRNA interface [nucleotide binding]; other site 699246000564 L27 interface [polypeptide binding]; other site 699246000565 23S rRNA interface [nucleotide binding]; other site 699246000566 L5 interface [polypeptide binding]; other site 699246000567 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 699246000568 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 699246000569 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 699246000570 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 699246000571 23S rRNA binding site [nucleotide binding]; other site 699246000572 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 699246000573 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 699246000574 SecY translocase; Region: SecY; pfam00344 699246000575 adenylate kinase; Reviewed; Region: adk; PRK00279 699246000576 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 699246000577 AMP-binding site [chemical binding]; other site 699246000578 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 699246000579 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 699246000580 active site 699246000581 KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088 699246000582 RNA binding site [nucleotide binding]; other site 699246000583 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 699246000584 rRNA binding site [nucleotide binding]; other site 699246000585 predicted 30S ribosome binding site; other site 699246000586 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 699246000587 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 699246000588 30S ribosomal protein S13; Region: bact_S13; TIGR03631 699246000589 30S ribosomal protein S11; Validated; Region: PRK05309 699246000590 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 699246000591 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 699246000592 alphaNTD - beta interaction site [polypeptide binding]; other site 699246000593 alphaNTD homodimer interface [polypeptide binding]; other site 699246000594 alphaNTD - beta' interaction site [polypeptide binding]; other site 699246000595 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 699246000596 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 699246000597 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 699246000598 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 699246000599 Walker A/P-loop; other site 699246000600 ATP binding site [chemical binding]; other site 699246000601 Q-loop/lid; other site 699246000602 ABC transporter signature motif; other site 699246000603 Walker B; other site 699246000604 D-loop; other site 699246000605 H-loop/switch region; other site 699246000606 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 699246000607 Walker A/P-loop; other site 699246000608 ATP binding site [chemical binding]; other site 699246000609 Q-loop/lid; other site 699246000610 ABC transporter signature motif; other site 699246000611 Walker B; other site 699246000612 D-loop; other site 699246000613 H-loop/switch region; other site 699246000614 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 699246000615 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 699246000616 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 699246000617 dimerization interface 3.5A [polypeptide binding]; other site 699246000618 active site 699246000619 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 699246000620 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 699246000621 active site 699246000622 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 699246000623 active site 699246000624 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 699246000625 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 699246000626 active site 699246000627 HIGH motif; other site 699246000628 KMSKS motif; other site 699246000629 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 699246000630 tRNA binding surface [nucleotide binding]; other site 699246000631 anticodon binding site; other site 699246000632 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 699246000633 dimer interface [polypeptide binding]; other site 699246000634 putative tRNA-binding site [nucleotide binding]; other site 699246000635 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 699246000636 active site 699246000637 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 699246000638 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 699246000639 NAD binding site [chemical binding]; other site 699246000640 homodimer interface [polypeptide binding]; other site 699246000641 active site 699246000642 substrate binding site [chemical binding]; other site 699246000643 cytosolic glyceraldehyde 3-phosphate dehydrogenase; Provisional; Region: PTZ00434 699246000644 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 699246000645 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 699246000646 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 699246000647 active site 699246000648 metal binding site [ion binding]; metal-binding site 699246000649 DNA binding site [nucleotide binding] 699246000650 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 699246000651 Uncharacterized conserved protein [Function unknown]; Region: COG4717 699246000652 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 699246000653 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 699246000654 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 699246000655 Uncharacterized conserved protein [Function unknown]; Region: COG4717 699246000656 Domain of unknown function (DUF955); Region: DUF955; pfam06114 699246000657 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 699246000658 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 699246000659 non-specific DNA binding site [nucleotide binding]; other site 699246000660 salt bridge; other site 699246000661 sequence-specific DNA binding site [nucleotide binding]; other site 699246000662 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 699246000663 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 699246000664 active site 699246000665 DNA binding site [nucleotide binding] 699246000666 hypothetical protein; Provisional; Region: PRK11820 699246000667 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 699246000668 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 699246000669 Domain of unknown function (DUF370); Region: DUF370; cl00898 699246000670 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 699246000671 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 699246000672 catalytic site [active] 699246000673 G-X2-G-X-G-K; other site 699246000674 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 699246000675 glycyl-tRNA synthetase; Provisional; Region: PRK04173 699246000676 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 699246000677 motif 1; other site 699246000678 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 699246000679 active site 699246000680 motif 2; other site 699246000681 motif 3; other site 699246000682 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 699246000683 anticodon binding site; other site 699246000684 pyruvate phosphate dikinase; Provisional; Region: PRK09279 699246000685 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 699246000686 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 699246000687 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 699246000688 Predicted dehydrogenase [General function prediction only]; Region: COG0579 699246000689 hydroxyglutarate oxidase; Provisional; Region: PRK11728 699246000690 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 699246000691 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 699246000692 Protein of unknown function (DUF1667); Region: DUF1667; cl17602 699246000693 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 699246000694 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 699246000695 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 699246000696 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 699246000697 Walker A/P-loop; other site 699246000698 ATP binding site [chemical binding]; other site 699246000699 Q-loop/lid; other site 699246000700 ABC transporter signature motif; other site 699246000701 Walker B; other site 699246000702 D-loop; other site 699246000703 H-loop/switch region; other site 699246000704 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 699246000705 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 699246000706 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 699246000707 Walker A/P-loop; other site 699246000708 ATP binding site [chemical binding]; other site 699246000709 Q-loop/lid; other site 699246000710 ABC transporter signature motif; other site 699246000711 Walker B; other site 699246000712 D-loop; other site 699246000713 H-loop/switch region; other site 699246000714 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 699246000715 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 699246000716 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 699246000717 dimer interface [polypeptide binding]; other site 699246000718 conserved gate region; other site 699246000719 putative PBP binding loops; other site 699246000720 ABC-ATPase subunit interface; other site 699246000721 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 699246000722 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 699246000723 dimer interface [polypeptide binding]; other site 699246000724 conserved gate region; other site 699246000725 putative PBP binding loops; other site 699246000726 ABC-ATPase subunit interface; other site 699246000727 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 699246000728 ligand binding site [chemical binding]; other site 699246000729 active site 699246000730 UGI interface [polypeptide binding]; other site 699246000731 catalytic site [active] 699246000732 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 699246000733 short chain dehydrogenase; Validated; Region: PRK06182 699246000734 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 699246000735 NAD(P) binding site [chemical binding]; other site 699246000736 active site 699246000737 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_4; cd13144 699246000738 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 699246000739 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 699246000740 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 699246000741 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 699246000742 Walker A/P-loop; other site 699246000743 ATP binding site [chemical binding]; other site 699246000744 Q-loop/lid; other site 699246000745 ABC transporter signature motif; other site 699246000746 Walker B; other site 699246000747 D-loop; other site 699246000748 H-loop/switch region; other site 699246000749 NIL domain; Region: NIL; pfam09383 699246000750 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 699246000751 dimer interface [polypeptide binding]; other site 699246000752 conserved gate region; other site 699246000753 ABC-ATPase subunit interface; other site 699246000754 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 699246000755 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 699246000756 DJ-1 family protein; Region: not_thiJ; TIGR01383 699246000757 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 699246000758 conserved cys residue [active] 699246000759 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 699246000760 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 699246000761 ligand binding site [chemical binding]; other site 699246000762 flexible hinge region; other site 699246000763 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; cl17320 699246000764 Uncharacterized conserved protein [Function unknown]; Region: COG1624 699246000765 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 699246000766 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 699246000767 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 699246000768 active site 699246000769 substrate binding site [chemical binding]; other site 699246000770 metal binding site [ion binding]; metal-binding site 699246000771 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cl02713 699246000772 active site 699246000773 metal binding site [ion binding]; metal-binding site 699246000774 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 699246000775 active site 699246000776 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 699246000777 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 699246000778 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 699246000779 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 699246000780 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 699246000781 tetramer (dimer of dimers) interface [polypeptide binding]; other site 699246000782 active site 699246000783 dimer interface [polypeptide binding]; other site 699246000784 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 699246000785 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 699246000786 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 699246000787 Protein of unknown function (DUF1312); Region: DUF1312; pfam07009 699246000788 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 699246000789 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 699246000790 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 699246000791 Ligand binding site; other site 699246000792 Putative Catalytic site; other site 699246000793 DXD motif; other site 699246000794 Isochorismatase family; Region: Isochorismatase; pfam00857 699246000795 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 699246000796 catalytic triad [active] 699246000797 dimer interface [polypeptide binding]; other site 699246000798 conserved cis-peptide bond; other site 699246000799 Uroporphyrinogen-III methylase [Coenzyme metabolism]; Region: CysG; COG0007 699246000800 active site 699246000801 homodimer interface [polypeptide binding]; other site 699246000802 SAM binding site [chemical binding]; other site 699246000803 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 699246000804 active site 699246000805 Chorismate mutase type II; Region: CM_2; smart00830 699246000806 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 699246000807 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 699246000808 Walker A/P-loop; other site 699246000809 ATP binding site [chemical binding]; other site 699246000810 Q-loop/lid; other site 699246000811 ABC transporter signature motif; other site 699246000812 Walker B; other site 699246000813 D-loop; other site 699246000814 H-loop/switch region; other site 699246000815 V-type ATP synthase subunit I; Validated; Region: PRK05771 699246000816 V-type ATP synthase subunit K; Validated; Region: PRK06558 699246000817 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 699246000818 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 699246000819 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 699246000820 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 699246000821 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; cl00632 699246000822 V-type ATP synthase subunit A; Provisional; Region: PRK04192 699246000823 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 699246000824 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 699246000825 Walker A motif/ATP binding site; other site 699246000826 Walker B motif; other site 699246000827 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 699246000828 V-type ATP synthase subunit B; Provisional; Region: PRK04196 699246000829 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 699246000830 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 699246000831 Walker A motif homologous position; other site 699246000832 Walker B motif; other site 699246000833 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 699246000834 V-type ATP synthase subunit D; Reviewed; Region: PRK00373 699246000835 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 699246000836 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 699246000837 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 699246000838 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 699246000839 ATP binding site [chemical binding]; other site 699246000840 putative Mg++ binding site [ion binding]; other site 699246000841 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 699246000842 nucleotide binding region [chemical binding]; other site 699246000843 ATP-binding site [chemical binding]; other site 699246000844 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 699246000845 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 699246000846 substrate binding pocket [chemical binding]; other site 699246000847 membrane-bound complex binding site; other site 699246000848 hinge residues; other site 699246000849 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 699246000850 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 699246000851 dimer interface [polypeptide binding]; other site 699246000852 conserved gate region; other site 699246000853 putative PBP binding loops; other site 699246000854 ABC-ATPase subunit interface; other site 699246000855 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 699246000856 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246000857 Walker A/P-loop; other site 699246000858 ATP binding site [chemical binding]; other site 699246000859 Q-loop/lid; other site 699246000860 ABC transporter signature motif; other site 699246000861 Walker B; other site 699246000862 D-loop; other site 699246000863 H-loop/switch region; other site 699246000864 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 699246000865 Transcriptional regulators [Transcription]; Region: GntR; COG1802 699246000866 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 699246000867 DNA-binding site [nucleotide binding]; DNA binding site 699246000868 FCD domain; Region: FCD; pfam07729 699246000869 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 699246000870 hydroxyglutarate oxidase; Provisional; Region: PRK11728 699246000871 Thiamine-precursor transporter protein (ThiW); Region: ThiW; pfam09512 699246000872 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 699246000873 substrate binding site [chemical binding]; other site 699246000874 multimerization interface [polypeptide binding]; other site 699246000875 ATP binding site [chemical binding]; other site 699246000876 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 699246000877 thiamine phosphate binding site [chemical binding]; other site 699246000878 active site 699246000879 pyrophosphate binding site [ion binding]; other site 699246000880 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 699246000881 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 699246000882 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 699246000883 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 699246000884 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246000885 Walker A/P-loop; other site 699246000886 ATP binding site [chemical binding]; other site 699246000887 Q-loop/lid; other site 699246000888 ABC transporter signature motif; other site 699246000889 Walker B; other site 699246000890 D-loop; other site 699246000891 H-loop/switch region; other site 699246000892 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 699246000893 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 699246000894 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246000895 Walker A/P-loop; other site 699246000896 ATP binding site [chemical binding]; other site 699246000897 Q-loop/lid; other site 699246000898 ABC transporter signature motif; other site 699246000899 Walker B; other site 699246000900 D-loop; other site 699246000901 H-loop/switch region; other site 699246000902 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 699246000903 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 699246000904 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 699246000905 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 699246000906 Walker A/P-loop; other site 699246000907 ATP binding site [chemical binding]; other site 699246000908 Q-loop/lid; other site 699246000909 ABC transporter signature motif; other site 699246000910 Walker B; other site 699246000911 D-loop; other site 699246000912 H-loop/switch region; other site 699246000913 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 699246000914 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246000915 Walker A/P-loop; other site 699246000916 ATP binding site [chemical binding]; other site 699246000917 Q-loop/lid; other site 699246000918 ABC transporter signature motif; other site 699246000919 Walker B; other site 699246000920 D-loop; other site 699246000921 H-loop/switch region; other site 699246000922 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 699246000923 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 699246000924 HIGH motif; other site 699246000925 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 699246000926 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 699246000927 active site 699246000928 KMSKS motif; other site 699246000929 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 699246000930 tRNA binding surface [nucleotide binding]; other site 699246000931 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 699246000932 TraX protein; Region: TraX; cl05434 699246000933 rod shape-determining protein MreB; Provisional; Region: PRK13927 699246000934 MreB and similar proteins; Region: MreB_like; cd10225 699246000935 nucleotide binding site [chemical binding]; other site 699246000936 Mg binding site [ion binding]; other site 699246000937 putative protofilament interaction site [polypeptide binding]; other site 699246000938 RodZ interaction site [polypeptide binding]; other site 699246000939 transcription termination factor Rho; Provisional; Region: PRK12608 699246000940 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 699246000941 RNA binding site [nucleotide binding]; other site 699246000942 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 699246000943 multimer interface [polypeptide binding]; other site 699246000944 Walker A motif; other site 699246000945 ATP binding site [chemical binding]; other site 699246000946 Walker B motif; other site 699246000947 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 699246000948 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 699246000949 HemK family putative methylases; Region: hemK_fam; TIGR00536 699246000950 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 699246000951 S-adenosylmethionine binding site [chemical binding]; other site 699246000952 peptide chain release factor 1; Validated; Region: prfA; PRK00591 699246000953 This domain is found in peptide chain release factors; Region: PCRF; smart00937 699246000954 RF-1 domain; Region: RF-1; pfam00472 699246000955 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 699246000956 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 699246000957 Low molecular weight phosphatase family; Region: LMWPc; cd00115 699246000958 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 699246000959 active site 699246000960 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 699246000961 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246000962 Walker A/P-loop; other site 699246000963 ATP binding site [chemical binding]; other site 699246000964 Q-loop/lid; other site 699246000965 ABC transporter signature motif; other site 699246000966 Walker B; other site 699246000967 D-loop; other site 699246000968 H-loop/switch region; other site 699246000969 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 699246000970 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 699246000971 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 699246000972 putative active site [active] 699246000973 catalytic triad [active] 699246000974 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 699246000975 putative integrin binding motif; other site 699246000976 PA/protease domain interface [polypeptide binding]; other site 699246000977 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 699246000978 catalytic residues [active] 699246000979 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 699246000980 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 699246000981 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 699246000982 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 699246000983 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 699246000984 dimer interface [polypeptide binding]; other site 699246000985 ssDNA binding site [nucleotide binding]; other site 699246000986 tetramer (dimer of dimers) interface [polypeptide binding]; other site 699246000987 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 699246000988 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 699246000989 Transcriptional regulator [Transcription]; Region: LysR; COG0583 699246000990 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 699246000991 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 699246000992 dimerization interface [polypeptide binding]; other site 699246000993 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 699246000994 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 699246000995 putative acyl-acceptor binding pocket; other site 699246000996 ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]; Region: AddB; COG3857 699246000997 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 699246000998 Part of AAA domain; Region: AAA_19; pfam13245 699246000999 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 699246001000 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 699246001001 Family description; Region: UvrD_C_2; pfam13538 699246001002 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 699246001003 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 699246001004 uncharacterized ygcE-like proteins; Region: FGGY_ygcE_like; cd07779 699246001005 putative N- and C-terminal domain interface [polypeptide binding]; other site 699246001006 putative active site [active] 699246001007 MgATP binding site [chemical binding]; other site 699246001008 catalytic site [active] 699246001009 metal binding site [ion binding]; metal-binding site 699246001010 putative carbohydrate binding site [chemical binding]; other site 699246001011 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 699246001012 MarR family; Region: MarR_2; pfam12802 699246001013 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 699246001014 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 699246001015 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 699246001016 ATP binding site [chemical binding]; other site 699246001017 putative Mg++ binding site [ion binding]; other site 699246001018 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 699246001019 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 699246001020 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 699246001021 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 699246001022 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 699246001023 ambiguous bases; TGTC indel in minority of Sanger and 454 reads in 84 base quadra-nucleotide repeat area 699246001024 Virulence protein [General function prediction only]; Region: COG3943 699246001025 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 699246001026 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 699246001027 HsdM N-terminal domain; Region: HsdM_N; pfam12161 699246001028 Methyltransferase domain; Region: Methyltransf_26; pfam13659 699246001029 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 699246001030 active site 699246001031 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 699246001032 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 699246001033 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 699246001034 Prominin; Region: Prominin; pfam05478 699246001035 ferric uptake regulator; Provisional; Region: fur; PRK09462 699246001036 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 699246001037 metal binding site 2 [ion binding]; metal-binding site 699246001038 putative DNA binding helix; other site 699246001039 metal binding site 1 [ion binding]; metal-binding site 699246001040 dimer interface [polypeptide binding]; other site 699246001041 structural Zn2+ binding site [ion binding]; other site 699246001042 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 699246001043 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 699246001044 ABC-ATPase subunit interface; other site 699246001045 dimer interface [polypeptide binding]; other site 699246001046 putative PBP binding regions; other site 699246001047 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 699246001048 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 699246001049 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 699246001050 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 699246001051 G1 box; other site 699246001052 putative GEF interaction site [polypeptide binding]; other site 699246001053 GTP/Mg2+ binding site [chemical binding]; other site 699246001054 Switch I region; other site 699246001055 G2 box; other site 699246001056 G3 box; other site 699246001057 Switch II region; other site 699246001058 G4 box; other site 699246001059 G5 box; other site 699246001060 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 699246001061 Prominin; Region: Prominin; pfam05478 699246001062 hypothetical protein; Validated; Region: PRK00110 699246001063 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 699246001064 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; cd02019 699246001065 active site 699246001066 Asp23 family; Region: Asp23; pfam03780 699246001067 Smr domain; Region: Smr; pfam01713 699246001068 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 699246001069 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 699246001070 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 699246001071 catalytic residues [active] 699246001072 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 699246001073 catalytic residues [active] 699246001074 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 699246001075 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 699246001076 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 699246001077 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 699246001078 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 699246001079 motif 1; other site 699246001080 active site 699246001081 motif 2; other site 699246001082 motif 3; other site 699246001083 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 699246001084 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 699246001085 Probable transposase; Region: OrfB_IS605; pfam01385 699246001086 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 699246001087 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 699246001088 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 699246001089 nucleotide binding site/active site [active] 699246001090 HIT family signature motif; other site 699246001091 catalytic residue [active] 699246001092 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 699246001093 trimer interface [polypeptide binding]; other site 699246001094 active site 699246001095 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 699246001096 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 699246001097 DHH family; Region: DHH; pfam01368 699246001098 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 699246001099 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 699246001100 Zn2+ binding site [ion binding]; other site 699246001101 Mg2+ binding site [ion binding]; other site 699246001102 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 699246001103 synthetase active site [active] 699246001104 NTP binding site [chemical binding]; other site 699246001105 metal binding site [ion binding]; metal-binding site 699246001106 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 699246001107 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 699246001108 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 699246001109 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 699246001110 Coenzyme A binding pocket [chemical binding]; other site 699246001111 Methyltransferase domain; Region: Methyltransf_31; pfam13847 699246001112 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 699246001113 S-adenosylmethionine binding site [chemical binding]; other site 699246001114 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 699246001115 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 699246001116 Coenzyme A binding pocket [chemical binding]; other site 699246001117 Virulence protein [General function prediction only]; Region: COG3943 699246001118 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 699246001119 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 699246001120 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 699246001121 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 699246001122 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 699246001123 FAD binding pocket [chemical binding]; other site 699246001124 FAD binding motif [chemical binding]; other site 699246001125 phosphate binding motif [ion binding]; other site 699246001126 beta-alpha-beta structure motif; other site 699246001127 NAD binding pocket [chemical binding]; other site 699246001128 Iron coordination center [ion binding]; other site 699246001129 putative oxidoreductase; Provisional; Region: PRK12831 699246001130 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 699246001131 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 699246001132 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 699246001133 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 699246001134 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 699246001135 Q-loop/lid; other site 699246001136 ABC transporter signature motif; other site 699246001137 Walker B; other site 699246001138 D-loop; other site 699246001139 H-loop/switch region; other site 699246001140 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 699246001141 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 699246001142 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 699246001143 active site 699246001144 HIGH motif; other site 699246001145 dimer interface [polypeptide binding]; other site 699246001146 KMSKS motif; other site 699246001147 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 699246001148 hypothetical protein; Provisional; Region: PRK13670 699246001149 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 699246001150 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 699246001151 propionate/acetate kinase; Provisional; Region: PRK12379 699246001152 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 699246001153 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 699246001154 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 699246001155 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 699246001156 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 699246001157 23S rRNA binding site [nucleotide binding]; other site 699246001158 L21 binding site [polypeptide binding]; other site 699246001159 L13 binding site [polypeptide binding]; other site 699246001160 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 699246001161 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 699246001162 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 699246001163 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 699246001164 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 699246001165 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 699246001166 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 699246001167 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 699246001168 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 699246001169 Walker A motif; other site 699246001170 ATP binding site [chemical binding]; other site 699246001171 Walker B motif; other site 699246001172 arginine finger; other site 699246001173 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 699246001174 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 699246001175 Walker A motif; other site 699246001176 ATP binding site [chemical binding]; other site 699246001177 Walker B motif; other site 699246001178 arginine finger; other site 699246001179 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 699246001180 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 699246001181 Peptidase family U32; Region: Peptidase_U32; pfam01136 699246001182 Collagenase; Region: DUF3656; pfam12392 699246001183 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 699246001184 trimer interface [polypeptide binding]; other site 699246001185 active site 699246001186 UGMP family protein; Validated; Region: PRK09604 699246001187 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 699246001188 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 699246001189 SmpB-tmRNA interface; other site 699246001190 trigger factor; Provisional; Region: tig; PRK01490 699246001191 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 699246001192 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 699246001193 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 699246001194 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 699246001195 oligomer interface [polypeptide binding]; other site 699246001196 active site residues [active] 699246001197 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 699246001198 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 699246001199 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 699246001200 Walker A motif; other site 699246001201 ATP binding site [chemical binding]; other site 699246001202 Walker B motif; other site 699246001203 arginine finger; other site 699246001204 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 699246001205 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; cl01839 699246001206 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 699246001207 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 699246001208 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 699246001209 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 699246001210 Domain found in IF2B/IF5; Region: eIF-5_eIF-2B; cl17014 699246001211 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 699246001212 Ribonuclease P; Region: Ribonuclease_P; cl00457 699246001213 Haemolytic domain; Region: Haemolytic; pfam01809 699246001214 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 699246001215 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 699246001216 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 699246001217 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 699246001218 G-X-X-G motif; other site 699246001219 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 699246001220 RxxxH motif; other site 699246001221 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 699246001222 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 699246001223 trmE is a tRNA modification GTPase; Region: trmE; cd04164 699246001224 G1 box; other site 699246001225 GTP/Mg2+ binding site [chemical binding]; other site 699246001226 Switch I region; other site 699246001227 G2 box; other site 699246001228 Switch II region; other site 699246001229 G3 box; other site 699246001230 G4 box; other site 699246001231 G5 box; other site 699246001232 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 699246001233 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 699246001234 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 699246001235 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 699246001236 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 699246001237 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 699246001238 DNA gyrase subunit A; Validated; Region: PRK05560 699246001239 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 699246001240 CAP-like domain; other site 699246001241 active site 699246001242 primary dimer interface [polypeptide binding]; other site 699246001243 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 699246001244 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 699246001245 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 699246001246 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 699246001247 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 699246001248 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 699246001249 putative active site [active] 699246001250 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 699246001251 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 699246001252 active site 699246001253 phosphorylation site [posttranslational modification] 699246001254 intermolecular recognition site; other site 699246001255 dimerization interface [polypeptide binding]; other site 699246001256 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 699246001257 DNA binding site [nucleotide binding] 699246001258 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 699246001259 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 699246001260 dimer interface [polypeptide binding]; other site 699246001261 phosphorylation site [posttranslational modification] 699246001262 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 699246001263 ATP binding site [chemical binding]; other site 699246001264 Mg2+ binding site [ion binding]; other site 699246001265 G-X-G motif; other site 699246001266 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 699246001267 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 699246001268 hinge; other site 699246001269 active site 699246001270 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 699246001271 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 699246001272 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 699246001273 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 699246001274 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 699246001275 putative homodimer interface [polypeptide binding]; other site 699246001276 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 699246001277 heterodimer interface [polypeptide binding]; other site 699246001278 homodimer interface [polypeptide binding]; other site 699246001279 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 699246001280 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 699246001281 23S rRNA interface [nucleotide binding]; other site 699246001282 L7/L12 interface [polypeptide binding]; other site 699246001283 putative thiostrepton binding site; other site 699246001284 L25 interface [polypeptide binding]; other site 699246001285 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 699246001286 mRNA/rRNA interface [nucleotide binding]; other site 699246001287 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 699246001288 23S rRNA interface [nucleotide binding]; other site 699246001289 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 699246001290 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 699246001291 core dimer interface [polypeptide binding]; other site 699246001292 peripheral dimer interface [polypeptide binding]; other site 699246001293 L10 interface [polypeptide binding]; other site 699246001294 L11 interface [polypeptide binding]; other site 699246001295 putative EF-Tu interaction site [polypeptide binding]; other site 699246001296 putative EF-G interaction site [polypeptide binding]; other site 699246001297 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 699246001298 HPr kinase/phosphorylase; Provisional; Region: PRK05428 699246001299 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 699246001300 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 699246001301 Hpr binding site; other site 699246001302 active site 699246001303 homohexamer subunit interaction site [polypeptide binding]; other site 699246001304 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 699246001305 FAD binding domain; Region: FAD_binding_4; pfam01565 699246001306 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 699246001307 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 699246001308 Sporulation Regulator WhiA C terminal domain; Region: HTH_WhiA; pfam02650 699246001309 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 699246001310 putative switch regulator; other site 699246001311 non-specific DNA interactions [nucleotide binding]; other site 699246001312 DNA binding site [nucleotide binding] 699246001313 sequence specific DNA binding site [nucleotide binding]; other site 699246001314 putative cAMP binding site [chemical binding]; other site 699246001315 seryl-tRNA synthetase; Provisional; Region: PRK05431 699246001316 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 699246001317 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 699246001318 motif 1; other site 699246001319 dimer interface [polypeptide binding]; other site 699246001320 active site 699246001321 motif 2; other site 699246001322 motif 3; other site 699246001323 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 699246001324 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 699246001325 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 699246001326 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 699246001327 metal binding site [ion binding]; metal-binding site 699246001328 dimer interface [polypeptide binding]; other site 699246001329 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 699246001330 Uncharacterized conserved protein [Function unknown]; Region: COG2966 699246001331 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 699246001332 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 699246001333 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 699246001334 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 699246001335 S17 interaction site [polypeptide binding]; other site 699246001336 S8 interaction site; other site 699246001337 16S rRNA interaction site [nucleotide binding]; other site 699246001338 streptomycin interaction site [chemical binding]; other site 699246001339 23S rRNA interaction site [nucleotide binding]; other site 699246001340 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 699246001341 30S ribosomal protein S7; Validated; Region: PRK05302 699246001342 elongation factor G; Reviewed; Region: PRK00007 699246001343 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 699246001344 G1 box; other site 699246001345 putative GEF interaction site [polypeptide binding]; other site 699246001346 GTP/Mg2+ binding site [chemical binding]; other site 699246001347 Switch I region; other site 699246001348 G2 box; other site 699246001349 G3 box; other site 699246001350 Switch II region; other site 699246001351 G4 box; other site 699246001352 G5 box; other site 699246001353 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 699246001354 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 699246001355 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 699246001356 elongation factor Tu; Reviewed; Region: PRK00049 699246001357 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 699246001358 G1 box; other site 699246001359 GEF interaction site [polypeptide binding]; other site 699246001360 GTP/Mg2+ binding site [chemical binding]; other site 699246001361 Switch I region; other site 699246001362 G2 box; other site 699246001363 G3 box; other site 699246001364 Switch II region; other site 699246001365 G4 box; other site 699246001366 G5 box; other site 699246001367 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 699246001368 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 699246001369 Antibiotic Binding Site [chemical binding]; other site 699246001370 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 699246001371 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 699246001372 ATP binding site [chemical binding]; other site 699246001373 Walker B motif; other site 699246001374 arginine finger; other site 699246001375 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 699246001376 Uncharacterized conserved protein [Function unknown]; Region: COG1739 699246001377 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 699246001378 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 699246001379 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 699246001380 putative metal binding site [ion binding]; other site 699246001381 Uncharacterized conserved protein [Function unknown]; Region: COG1432 699246001382 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 699246001383 4-alpha-glucanotransferase; Provisional; Region: PRK14508 699246001384 elongation factor P; Validated; Region: PRK00529 699246001385 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 699246001386 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 699246001387 RNA binding site [nucleotide binding]; other site 699246001388 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 699246001389 RNA binding site [nucleotide binding]; other site 699246001390 Asp23 family; Region: Asp23; pfam03780 699246001391 Asp23 family; Region: Asp23; pfam03780 699246001392 Sodium / potassium ATPase beta chain; Region: Na_K-ATPase; cl08255 699246001393 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 699246001394 putative RNA binding site [nucleotide binding]; other site 699246001395 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 699246001396 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 699246001397 generic binding surface II; other site 699246001398 generic binding surface I; other site 699246001399 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 699246001400 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 699246001401 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 699246001402 substrate binding pocket [chemical binding]; other site 699246001403 chain length determination region; other site 699246001404 substrate-Mg2+ binding site; other site 699246001405 catalytic residues [active] 699246001406 aspartate-rich region 1; other site 699246001407 active site lid residues [active] 699246001408 aspartate-rich region 2; other site 699246001409 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 699246001410 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 699246001411 TPP-binding site; other site 699246001412 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 699246001413 PYR/PP interface [polypeptide binding]; other site 699246001414 dimer interface [polypeptide binding]; other site 699246001415 TPP binding site [chemical binding]; other site 699246001416 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 699246001417 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 699246001418 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 699246001419 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 699246001420 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 699246001421 Walker A/P-loop; other site 699246001422 ATP binding site [chemical binding]; other site 699246001423 Q-loop/lid; other site 699246001424 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 699246001425 Q-loop/lid; other site 699246001426 ABC transporter signature motif; other site 699246001427 Walker B; other site 699246001428 D-loop; other site 699246001429 H-loop/switch region; other site 699246001430 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08642 699246001431 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 699246001432 NAD(P) binding site [chemical binding]; other site 699246001433 active site 699246001434 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 699246001435 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 699246001436 active site 699246001437 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 699246001438 HsdM N-terminal domain; Region: HsdM_N; pfam12161 699246001439 Uncharacterized conserved protein [Function unknown]; Region: COG4933 699246001440 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 699246001441 putative active site [active] 699246001442 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 699246001443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 699246001444 ATP binding site [chemical binding]; other site 699246001445 putative Mg++ binding site [ion binding]; other site 699246001446 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 699246001447 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 699246001448 DNA methylase; Region: N6_N4_Mtase; pfam01555 699246001449 DNA methylase; Region: N6_N4_Mtase; pfam01555 699246001450 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 699246001451 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 699246001452 non-specific DNA binding site [nucleotide binding]; other site 699246001453 salt bridge; other site 699246001454 sequence-specific DNA binding site [nucleotide binding]; other site 699246001455 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 699246001456 potential frameshift: common BLAST hit: gi|19703909|ref|NP_603471.1| putative cytoplasmic protein 699246001457 chromosome segregation protein; Provisional; Region: PRK01156 699246001458 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 699246001459 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 699246001460 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 699246001461 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 699246001462 Walker A motif; other site 699246001463 ATP binding site [chemical binding]; other site 699246001464 Walker B motif; other site 699246001465 arginine finger; other site 699246001466 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 699246001467 non-specific DNA binding site [nucleotide binding]; other site 699246001468 salt bridge; other site 699246001469 sequence-specific DNA binding site [nucleotide binding]; other site 699246001470 Replication initiation factor; Region: Rep_trans; pfam02486 699246001471 Antirestriction protein (ArdA); Region: ArdA; pfam07275 699246001472 TcpE family; Region: TcpE; pfam12648 699246001473 potential frameshift: common BLAST hit: gi|307127293|ref|YP_003879324.1| conjugative transposon protein 699246001474 AAA-like domain; Region: AAA_10; pfam12846 699246001475 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 699246001476 Haemolysin-III related; Region: HlyIII; cl03831 699246001477 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 699246001478 N-acetyl-D-glucosamine binding site [chemical binding]; other site 699246001479 catalytic residue [active] 699246001480 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 699246001481 NlpC/P60 family; Region: NLPC_P60; pfam00877 699246001482 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 699246001483 tetracycline resistance determinant leader peptide; Provisional; Region: PRK14751 699246001484 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 699246001485 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 699246001486 G1 box; other site 699246001487 putative GEF interaction site [polypeptide binding]; other site 699246001488 GTP/Mg2+ binding site [chemical binding]; other site 699246001489 Switch I region; other site 699246001490 G2 box; other site 699246001491 G3 box; other site 699246001492 Switch II region; other site 699246001493 G4 box; other site 699246001494 G5 box; other site 699246001495 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 699246001496 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 699246001497 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 699246001498 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 699246001499 non-specific DNA binding site [nucleotide binding]; other site 699246001500 salt bridge; other site 699246001501 sequence-specific DNA binding site [nucleotide binding]; other site 699246001502 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 699246001503 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 699246001504 DNA binding residues [nucleotide binding] 699246001505 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 699246001506 Tn1545-related conjugative transposon integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes bacterial (gram positive) and phage integrases, including those similar to Tn1545, Tn5252, and...; Region: INT_Tn1545_C; cd01199 699246001507 Int/Topo IB signature motif; other site 699246001508 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 699246001509 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 699246001510 Helix-turn-helix domain; Region: HTH_18; pfam12833 699246001511 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 699246001512 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 699246001513 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 699246001514 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 699246001515 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 699246001516 Walker A/P-loop; other site 699246001517 ATP binding site [chemical binding]; other site 699246001518 Q-loop/lid; other site 699246001519 ABC transporter signature motif; other site 699246001520 Walker B; other site 699246001521 D-loop; other site 699246001522 H-loop/switch region; other site 699246001523 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246001524 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 699246001525 Walker A/P-loop; other site 699246001526 ATP binding site [chemical binding]; other site 699246001527 Q-loop/lid; other site 699246001528 ABC transporter signature motif; other site 699246001529 Walker B; other site 699246001530 D-loop; other site 699246001531 H-loop/switch region; other site 699246001532 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 699246001533 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 699246001534 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246001535 Walker A/P-loop; other site 699246001536 ATP binding site [chemical binding]; other site 699246001537 Q-loop/lid; other site 699246001538 ABC transporter signature motif; other site 699246001539 Walker B; other site 699246001540 D-loop; other site 699246001541 H-loop/switch region; other site 699246001542 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 699246001543 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246001544 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 699246001545 Walker A/P-loop; other site 699246001546 ATP binding site [chemical binding]; other site 699246001547 Q-loop/lid; other site 699246001548 ABC transporter signature motif; other site 699246001549 Walker B; other site 699246001550 D-loop; other site 699246001551 H-loop/switch region; other site 699246001552 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 699246001553 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 699246001554 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 699246001555 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 699246001556 Protein of unknown function DUF45; Region: DUF45; pfam01863 699246001557 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 699246001558 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 699246001559 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 699246001560 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 699246001561 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 699246001562 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 699246001563 Walker A/P-loop; other site 699246001564 ATP binding site [chemical binding]; other site 699246001565 Q-loop/lid; other site 699246001566 ABC transporter signature motif; other site 699246001567 Walker B; other site 699246001568 D-loop; other site 699246001569 H-loop/switch region; other site 699246001570 FtsX-like permease family; Region: FtsX; pfam02687 699246001571 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 699246001572 amphipathic channel; other site 699246001573 Asn-Pro-Ala signature motifs; other site 699246001574 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 699246001575 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 699246001576 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 699246001577 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 699246001578 putative switch regulator; other site 699246001579 non-specific DNA interactions [nucleotide binding]; other site 699246001580 DNA binding site [nucleotide binding] 699246001581 sequence specific DNA binding site [nucleotide binding]; other site 699246001582 putative cAMP binding site [chemical binding]; other site 699246001583 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 699246001584 DNA binding residues [nucleotide binding] 699246001585 signal recognition particle protein; Provisional; Region: PRK10867 699246001586 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 699246001587 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 699246001588 P loop; other site 699246001589 GTP binding site [chemical binding]; other site 699246001590 Signal peptide binding domain; Region: SRP_SPB; pfam02978 699246001591 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 699246001592 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 699246001593 KH domain; Region: KH_4; pfam13083 699246001594 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 699246001595 RimM N-terminal domain; Region: RimM; pfam01782 699246001596 PRC-barrel domain; Region: PRC; pfam05239 699246001597 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 699246001598 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 699246001599 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 699246001600 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 699246001601 GTP/Mg2+ binding site [chemical binding]; other site 699246001602 G4 box; other site 699246001603 G5 box; other site 699246001604 G1 box; other site 699246001605 Switch I region; other site 699246001606 G2 box; other site 699246001607 G3 box; other site 699246001608 Switch II region; other site 699246001609 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 699246001610 RNA/DNA hybrid binding site [nucleotide binding]; other site 699246001611 active site 699246001612 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 699246001613 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 699246001614 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 699246001615 DNA-binding site [nucleotide binding]; DNA binding site 699246001616 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 699246001617 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 699246001618 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 699246001619 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 699246001620 catalytic residue [active] 699246001621 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 699246001622 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 699246001623 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 699246001624 Ligand Binding Site [chemical binding]; other site 699246001625 recombination factor protein RarA; Reviewed; Region: PRK13342 699246001626 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 699246001627 Walker A motif; other site 699246001628 ATP binding site [chemical binding]; other site 699246001629 Walker B motif; other site 699246001630 arginine finger; other site 699246001631 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 699246001632 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 699246001633 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 699246001634 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 699246001635 catalytic residue [active] 699246001636 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 699246001637 active site 699246001638 catalytic triad [active] 699246001639 oxyanion hole [active] 699246001640 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 699246001641 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 699246001642 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 699246001643 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 699246001644 active site 699246001645 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 699246001646 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 699246001647 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 699246001648 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 699246001649 tetramer interface [polypeptide binding]; other site 699246001650 catalytic Zn binding site [ion binding]; other site 699246001651 NADP binding site [chemical binding]; other site 699246001652 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 699246001653 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 699246001654 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 699246001655 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 699246001656 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 699246001657 active site 699246001658 Zn binding site [ion binding]; other site 699246001659 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 699246001660 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 699246001661 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 699246001662 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 699246001663 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 699246001664 FeS/SAM binding site; other site 699246001665 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 699246001666 Protein phosphatase 2C; Region: PP2C; pfam00481 699246001667 active site 699246001668 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 699246001669 Catalytic domain of Protein Kinases; Region: PKc; cd00180 699246001670 active site 699246001671 ATP binding site [chemical binding]; other site 699246001672 substrate binding site [chemical binding]; other site 699246001673 activation loop (A-loop); other site 699246001674 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 699246001675 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 699246001676 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 699246001677 Predicted GTPases [General function prediction only]; Region: COG1162 699246001678 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 699246001679 RNA binding site [nucleotide binding]; other site 699246001680 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 699246001681 GTPase/Zn-binding domain interface [polypeptide binding]; other site 699246001682 GTP/Mg2+ binding site [chemical binding]; other site 699246001683 G4 box; other site 699246001684 G5 box; other site 699246001685 G1 box; other site 699246001686 Switch I region; other site 699246001687 G2 box; other site 699246001688 G3 box; other site 699246001689 Switch II region; other site 699246001690 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 699246001691 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 699246001692 substrate binding site [chemical binding]; other site 699246001693 hexamer interface [polypeptide binding]; other site 699246001694 metal binding site [ion binding]; metal-binding site 699246001695 Thiamine pyrophosphokinase; Region: TPK; cd07995 699246001696 active site 699246001697 dimerization interface [polypeptide binding]; other site 699246001698 thiamine binding site [chemical binding]; other site 699246001699 Prefoldin subunit; Region: Prefoldin_2; pfam01920 699246001700 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 699246001701 Peptidase family M23; Region: Peptidase_M23; pfam01551 699246001702 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 699246001703 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 699246001704 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 699246001705 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 699246001706 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 699246001707 TM-ABC transporter signature motif; other site 699246001708 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 699246001709 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 699246001710 TM-ABC transporter signature motif; other site 699246001711 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 699246001712 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 699246001713 Walker A/P-loop; other site 699246001714 ATP binding site [chemical binding]; other site 699246001715 Q-loop/lid; other site 699246001716 ABC transporter signature motif; other site 699246001717 Walker B; other site 699246001718 D-loop; other site 699246001719 H-loop/switch region; other site 699246001720 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 699246001721 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 699246001722 Walker A/P-loop; other site 699246001723 ATP binding site [chemical binding]; other site 699246001724 Q-loop/lid; other site 699246001725 ABC transporter signature motif; other site 699246001726 Walker B; other site 699246001727 D-loop; other site 699246001728 H-loop/switch region; other site 699246001729 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 699246001730 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 699246001731 DAK2 domain; Region: Dak2; cl03685 699246001732 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 699246001733 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 699246001734 Transcriptional regulators [Transcription]; Region: GntR; COG1802 699246001735 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 699246001736 DNA-binding site [nucleotide binding]; DNA binding site 699246001737 FCD domain; Region: FCD; pfam07729 699246001738 6-phosphofructokinase; Provisional; Region: PRK03202 699246001739 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 699246001740 active site 699246001741 ADP/pyrophosphate binding site [chemical binding]; other site 699246001742 dimerization interface [polypeptide binding]; other site 699246001743 allosteric effector site; other site 699246001744 fructose-1,6-bisphosphate binding site; other site 699246001745 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 699246001746 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 699246001747 MutS domain III; Region: MutS_III; pfam05192 699246001748 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 699246001749 Walker A/P-loop; other site 699246001750 ATP binding site [chemical binding]; other site 699246001751 Q-loop/lid; other site 699246001752 ABC transporter signature motif; other site 699246001753 Walker B; other site 699246001754 D-loop; other site 699246001755 H-loop/switch region; other site 699246001756 Smr domain; Region: Smr; pfam01713 699246001757 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 699246001758 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 699246001759 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 699246001760 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 699246001761 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 699246001762 acyl-activating enzyme (AAE) consensus motif; other site 699246001763 acyl-activating enzyme (AAE) consensus motif; other site 699246001764 AMP binding site [chemical binding]; other site 699246001765 active site 699246001766 CoA binding site [chemical binding]; other site 699246001767 Transcriptional regulator [Transcription]; Region: LysR; COG0583 699246001768 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 699246001769 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 699246001770 dimerization interface [polypeptide binding]; other site 699246001771 Alanine-glyoxylate amino-transferase; Region: Aminotran_MocR; pfam12897 699246001772 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 699246001773 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 699246001774 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 699246001775 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 699246001776 ATP synthase subunit C; Region: ATP-synt_C; cl00466 699246001777 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 699246001778 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 699246001779 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 699246001780 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 699246001781 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 699246001782 beta subunit interaction interface [polypeptide binding]; other site 699246001783 Walker A motif; other site 699246001784 ATP binding site [chemical binding]; other site 699246001785 Walker B motif; other site 699246001786 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 699246001787 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 699246001788 core domain interface [polypeptide binding]; other site 699246001789 delta subunit interface [polypeptide binding]; other site 699246001790 epsilon subunit interface [polypeptide binding]; other site 699246001791 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 699246001792 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 699246001793 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 699246001794 alpha subunit interaction interface [polypeptide binding]; other site 699246001795 Walker A motif; other site 699246001796 ATP binding site [chemical binding]; other site 699246001797 Walker B motif; other site 699246001798 inhibitor binding site; inhibition site 699246001799 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 699246001800 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 699246001801 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 699246001802 gamma subunit interface [polypeptide binding]; other site 699246001803 epsilon subunit interface [polypeptide binding]; other site 699246001804 LBP interface [polypeptide binding]; other site 699246001805 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 699246001806 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 699246001807 intersubunit interface [polypeptide binding]; other site 699246001808 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK13108 699246001809 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 699246001810 S-adenosylmethionine binding site [chemical binding]; other site 699246001811 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 699246001812 Catalytic site [active] 699246001813 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 699246001814 sequence-specific DNA binding site [nucleotide binding]; other site 699246001815 salt bridge; other site 699246001816 Radical SAM superfamily; Region: Radical_SAM; pfam04055 699246001817 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 699246001818 FeS/SAM binding site; other site 699246001819 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 699246001820 dimer interface [polypeptide binding]; other site 699246001821 substrate binding site [chemical binding]; other site 699246001822 ATP binding site [chemical binding]; other site 699246001823 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 699246001824 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 699246001825 Na binding site [ion binding]; other site 699246001826 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 699246001827 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 699246001828 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 699246001829 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 699246001830 active site 699246001831 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 699246001832 substrate binding site [chemical binding]; other site 699246001833 T-box leader 699246001834 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 699246001835 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 699246001836 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 699246001837 dimer interface [polypeptide binding]; other site 699246001838 motif 1; other site 699246001839 active site 699246001840 motif 2; other site 699246001841 motif 3; other site 699246001842 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 699246001843 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 699246001844 putative tRNA-binding site [nucleotide binding]; other site 699246001845 B3/4 domain; Region: B3_4; pfam03483 699246001846 tRNA synthetase B5 domain; Region: B5; smart00874 699246001847 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 699246001848 dimer interface [polypeptide binding]; other site 699246001849 motif 1; other site 699246001850 motif 3; other site 699246001851 motif 2; other site 699246001852 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 699246001853 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 699246001854 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 699246001855 ATP binding site [chemical binding]; other site 699246001856 putative Mg++ binding site [ion binding]; other site 699246001857 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 699246001858 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 699246001859 nucleotide binding region [chemical binding]; other site 699246001860 SEC-C motif; Region: SEC-C; pfam02810 699246001861 Predicted transcriptional regulators [Transcription]; Region: COG1725 699246001862 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 699246001863 DNA-binding site [nucleotide binding]; DNA binding site 699246001864 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 699246001865 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 699246001866 Walker A/P-loop; other site 699246001867 ATP binding site [chemical binding]; other site 699246001868 Q-loop/lid; other site 699246001869 ABC transporter signature motif; other site 699246001870 Walker B; other site 699246001871 D-loop; other site 699246001872 H-loop/switch region; other site 699246001873 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 699246001874 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 699246001875 active site 699246001876 Ap4A binding cleft/pocket [chemical binding]; other site 699246001877 P4 phosphate binding site; other site 699246001878 nudix motif; other site 699246001879 putative P2/P3 phosphate binding site [ion binding]; other site 699246001880 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 699246001881 active site 699246001882 xanthine permease; Region: pbuX; TIGR03173 699246001883 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 699246001884 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 699246001885 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 699246001886 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 699246001887 dimer interface [polypeptide binding]; other site 699246001888 conserved gate region; other site 699246001889 putative PBP binding loops; other site 699246001890 ABC-ATPase subunit interface; other site 699246001891 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 699246001892 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 699246001893 dimer interface [polypeptide binding]; other site 699246001894 conserved gate region; other site 699246001895 putative PBP binding loops; other site 699246001896 ABC-ATPase subunit interface; other site 699246001897 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 699246001898 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 699246001899 Walker A/P-loop; other site 699246001900 ATP binding site [chemical binding]; other site 699246001901 Q-loop/lid; other site 699246001902 ABC transporter signature motif; other site 699246001903 Walker B; other site 699246001904 D-loop; other site 699246001905 H-loop/switch region; other site 699246001906 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 699246001907 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 699246001908 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 699246001909 Walker A/P-loop; other site 699246001910 ATP binding site [chemical binding]; other site 699246001911 Q-loop/lid; other site 699246001912 ABC transporter signature motif; other site 699246001913 Walker B; other site 699246001914 D-loop; other site 699246001915 H-loop/switch region; other site 699246001916 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 699246001917 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 699246001918 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 699246001919 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 699246001920 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 699246001921 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 699246001922 GMP synthase, PP-ATPase domain/subunit [Nucleotide transport and metabolism]; Region: GuaA; COG0519 699246001923 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 699246001924 ATP Binding subdomain [chemical binding]; other site 699246001925 Ligand Binding sites [chemical binding]; other site 699246001926 Dimerization subdomain; other site 699246001927 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 699246001928 Transcriptional regulator [Transcription]; Region: LysR; COG0583 699246001929 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 699246001930 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 699246001931 dimerization interface [polypeptide binding]; other site 699246001932 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 699246001933 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 699246001934 domain interaction interfaces [polypeptide binding]; other site 699246001935 Protein of unknown function (DUF454); Region: DUF454; cl01063 699246001936 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 699246001937 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 699246001938 GMP synthase; Reviewed; Region: guaA; PRK00074 699246001939 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 699246001940 AMP/PPi binding site [chemical binding]; other site 699246001941 candidate oxyanion hole; other site 699246001942 catalytic triad [active] 699246001943 potential glutamine specificity residues [chemical binding]; other site 699246001944 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 699246001945 ATP Binding subdomain [chemical binding]; other site 699246001946 Ligand Binding sites [chemical binding]; other site 699246001947 Dimerization subdomain; other site 699246001948 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 699246001949 non-specific DNA binding site [nucleotide binding]; other site 699246001950 salt bridge; other site 699246001951 sequence-specific DNA binding site [nucleotide binding]; other site 699246001952 potential frameshift: common BLAST hit: gi|302335245|ref|YP_003800452.1| KilA-N, DNA-binding domain protein 699246001953 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 699246001954 catalytic residues [active] 699246001955 dimer interface [polypeptide binding]; other site 699246001956 Protein of unknown function (DUF2871); Region: DUF2871; pfam11070 699246001957 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 699246001958 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 699246001959 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 699246001960 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 699246001961 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246001962 Walker A/P-loop; other site 699246001963 ATP binding site [chemical binding]; other site 699246001964 Q-loop/lid; other site 699246001965 ABC transporter signature motif; other site 699246001966 Walker B; other site 699246001967 D-loop; other site 699246001968 H-loop/switch region; other site 699246001969 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 699246001970 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 699246001971 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246001972 Walker A/P-loop; other site 699246001973 ATP binding site [chemical binding]; other site 699246001974 Q-loop/lid; other site 699246001975 ABC transporter signature motif; other site 699246001976 Walker B; other site 699246001977 D-loop; other site 699246001978 H-loop/switch region; other site 699246001979 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 699246001980 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 699246001981 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 699246001982 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 699246001983 Na2 binding site [ion binding]; other site 699246001984 putative substrate binding site 1 [chemical binding]; other site 699246001985 Na binding site 1 [ion binding]; other site 699246001986 putative substrate binding site 2 [chemical binding]; other site 699246001987 potassium/proton antiporter; Reviewed; Region: PRK05326 699246001988 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 699246001989 TrkA-C domain; Region: TrkA_C; pfam02080 699246001990 TrkA-C domain; Region: TrkA_C; pfam02080 699246001991 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 699246001992 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 699246001993 HIGH motif; other site 699246001994 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 699246001995 active site 699246001996 KMSKS motif; other site 699246001997 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 699246001998 tRNA binding surface [nucleotide binding]; other site 699246001999 anticodon binding site; other site 699246002000 Peptidase family M50; Region: Peptidase_M50; pfam02163 699246002001 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 699246002002 active site 699246002003 putative substrate binding region [chemical binding]; other site 699246002004 ScpA/B protein; Region: ScpA_ScpB; cl00598 699246002005 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 699246002006 cytidylate kinase; Provisional; Region: cmk; PRK00023 699246002007 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 699246002008 CMP-binding site; other site 699246002009 The sites determining sugar specificity; other site 699246002010 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 699246002011 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 699246002012 putative acyl-acceptor binding pocket; other site 699246002013 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 699246002014 LytB protein; Region: LYTB; cl00507 699246002015 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 699246002016 RNA binding site [nucleotide binding]; other site 699246002017 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 699246002018 RNA binding site [nucleotide binding]; other site 699246002019 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 699246002020 RNA binding site [nucleotide binding]; other site 699246002021 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 699246002022 RNA binding site [nucleotide binding]; other site 699246002023 domain interface; other site 699246002024 dipeptidase PepV; Reviewed; Region: PRK07318 699246002025 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 699246002026 active site 699246002027 metal binding site [ion binding]; metal-binding site 699246002028 Rubrerythrin [Energy production and conversion]; Region: COG1592 699246002029 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 699246002030 binuclear metal center [ion binding]; other site 699246002031 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 699246002032 iron binding site [ion binding]; other site 699246002033 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 699246002034 DNA-binding site [nucleotide binding]; DNA binding site 699246002035 RNA-binding motif; other site 699246002036 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 699246002037 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 699246002038 Walker A/P-loop; other site 699246002039 ATP binding site [chemical binding]; other site 699246002040 Q-loop/lid; other site 699246002041 ABC transporter signature motif; other site 699246002042 Walker B; other site 699246002043 D-loop; other site 699246002044 H-loop/switch region; other site 699246002045 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 699246002046 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 699246002047 dimer interface [polypeptide binding]; other site 699246002048 conserved gate region; other site 699246002049 putative PBP binding loops; other site 699246002050 ABC-ATPase subunit interface; other site 699246002051 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 699246002052 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 699246002053 substrate binding pocket [chemical binding]; other site 699246002054 membrane-bound complex binding site; other site 699246002055 hinge residues; other site 699246002056 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 699246002057 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 699246002058 active site 699246002059 Peptidase family C69; Region: Peptidase_C69; pfam03577 699246002060 ArsC family; Region: ArsC; pfam03960 699246002061 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 699246002062 putative ArsC-like catalytic residues; other site 699246002063 putative TRX-like catalytic residues [active] 699246002064 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 699246002065 GAF domain; Region: GAF_2; pfam13185 699246002066 Hexokinase [Carbohydrate transport and metabolism]; Region: COG5026 699246002067 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 699246002068 nucleotide binding site [chemical binding]; other site 699246002069 Hexokinase; Region: Hexokinase_2; pfam03727 699246002070 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 699246002071 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 699246002072 RNA binding surface [nucleotide binding]; other site 699246002073 Septum formation initiator; Region: DivIC; cl17659 699246002074 recombination protein RecR; Reviewed; Region: recR; PRK00076 699246002075 RecR protein; Region: RecR; pfam02132 699246002076 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 699246002077 putative active site [active] 699246002078 putative metal-binding site [ion binding]; other site 699246002079 tetramer interface [polypeptide binding]; other site 699246002080 hypothetical protein; Validated; Region: PRK00153 699246002081 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 699246002082 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 699246002083 Walker A motif; other site 699246002084 ATP binding site [chemical binding]; other site 699246002085 Walker B motif; other site 699246002086 arginine finger; other site 699246002087 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 699246002088 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 699246002089 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 699246002090 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 699246002091 catalytic residue [active] 699246002092 thymidylate kinase; Validated; Region: tmk; PRK00698 699246002093 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 699246002094 TMP-binding site; other site 699246002095 ATP-binding site [chemical binding]; other site 699246002096 Protein of unknown function (DUF970); Region: DUF970; cl17525 699246002097 AAA ATPase domain; Region: AAA_16; pfam13191 699246002098 DNA polymerase III subunit delta'; Validated; Region: PRK08485 699246002099 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 699246002100 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 699246002101 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 699246002102 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 699246002103 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 699246002104 S-adenosylmethionine binding site [chemical binding]; other site 699246002105 Predicted methyltransferases [General function prediction only]; Region: COG0313 699246002106 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 699246002107 putative SAM binding site [chemical binding]; other site 699246002108 putative homodimer interface [polypeptide binding]; other site 699246002109 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 699246002110 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 699246002111 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 699246002112 23S rRNA interface [nucleotide binding]; other site 699246002113 L3 interface [polypeptide binding]; other site 699246002114 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 699246002115 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 699246002116 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 699246002117 Glycoprotease family; Region: Peptidase_M22; pfam00814 699246002118 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 699246002119 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 699246002120 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 699246002121 regulatory protein interface [polypeptide binding]; other site 699246002122 active site 699246002123 regulatory phosphorylation site [posttranslational modification]; other site 699246002124 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 699246002125 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 699246002126 GIY-YIG motif/motif A; other site 699246002127 active site 699246002128 catalytic site [active] 699246002129 putative DNA binding site [nucleotide binding]; other site 699246002130 metal binding site [ion binding]; metal-binding site 699246002131 UvrB/uvrC motif; Region: UVR; pfam02151 699246002132 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 699246002133 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 699246002134 DNA binding site [nucleotide binding] 699246002135 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 699246002136 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 699246002137 active site 699246002138 metal binding site [ion binding]; metal-binding site 699246002139 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 699246002140 dimerization interface [polypeptide binding]; other site 699246002141 putative DNA binding site [nucleotide binding]; other site 699246002142 putative Zn2+ binding site [ion binding]; other site 699246002143 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 699246002144 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 699246002145 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 699246002146 Cl- selectivity filter; other site 699246002147 Cl- binding residues [ion binding]; other site 699246002148 pore gating glutamate residue; other site 699246002149 dimer interface [polypeptide binding]; other site 699246002150 H+/Cl- coupling transport residue; other site 699246002151 TrkA-C domain; Region: TrkA_C; pfam02080 699246002152 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 699246002153 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 699246002154 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 699246002155 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 699246002156 dimer interface [polypeptide binding]; other site 699246002157 conserved gate region; other site 699246002158 putative PBP binding loops; other site 699246002159 ABC-ATPase subunit interface; other site 699246002160 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 699246002161 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 699246002162 dimer interface [polypeptide binding]; other site 699246002163 conserved gate region; other site 699246002164 putative PBP binding loops; other site 699246002165 ABC-ATPase subunit interface; other site 699246002166 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 699246002167 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 699246002168 Walker A/P-loop; other site 699246002169 ATP binding site [chemical binding]; other site 699246002170 Q-loop/lid; other site 699246002171 ABC transporter signature motif; other site 699246002172 Walker B; other site 699246002173 D-loop; other site 699246002174 H-loop/switch region; other site 699246002175 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 699246002176 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 699246002177 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 699246002178 Walker A/P-loop; other site 699246002179 ATP binding site [chemical binding]; other site 699246002180 Q-loop/lid; other site 699246002181 ABC transporter signature motif; other site 699246002182 Walker B; other site 699246002183 D-loop; other site 699246002184 H-loop/switch region; other site 699246002185 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 699246002186 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 699246002187 catalytic core [active] 699246002188 Predicted transcriptional regulators [Transcription]; Region: COG1695 699246002189 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 699246002190 Predicted membrane protein [Function unknown]; Region: COG4709 699246002191 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 699246002192 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 699246002193 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 699246002194 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 699246002195 Uncharacterized conserved protein [Function unknown]; Region: COG1284 699246002196 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 699246002197 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 699246002198 metal binding site [ion binding]; metal-binding site 699246002199 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 699246002200 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 699246002201 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 699246002202 putative active site [active] 699246002203 catalytic triad [active] 699246002204 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 699246002205 PA/protease domain interface [polypeptide binding]; other site 699246002206 putative integrin binding motif; other site 699246002207 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 699246002208 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 699246002209 catalytic residues [active] 699246002210 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 699246002211 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 699246002212 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 699246002213 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 699246002214 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 699246002215 Mg2+ binding site [ion binding]; other site 699246002216 G-X-G motif; other site 699246002217 DNA gyrase B; Region: DNA_gyraseB; pfam00204 699246002218 ATP binding site [chemical binding]; other site 699246002219 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 699246002220 active site 699246002221 putative metal-binding site [ion binding]; other site 699246002222 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 699246002223 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 699246002224 CAP-like domain; other site 699246002225 DNA gyrase/topoisomerase IV, subunit A; Region: DNA_topoisoIV; pfam00521 699246002226 active site 699246002227 primary dimer interface [polypeptide binding]; other site 699246002228 aspartate kinase; Reviewed; Region: PRK09034 699246002229 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 699246002230 nucleotide binding site [chemical binding]; other site 699246002231 substrate binding site [chemical binding]; other site 699246002232 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 699246002233 allosteric regulatory residue; other site 699246002234 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 699246002235 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 699246002236 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 699246002237 active site 699246002238 motif I; other site 699246002239 motif II; other site 699246002240 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 699246002241 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 699246002242 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 699246002243 active site 699246002244 protein-export membrane protein SecD; Region: secD; TIGR01129 699246002245 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 699246002246 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 699246002247 Protein export membrane protein; Region: SecD_SecF; cl14618 699246002248 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 699246002249 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 699246002250 Ligand Binding Site [chemical binding]; other site 699246002251 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 699246002252 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 699246002253 active site 699246002254 multimer interface [polypeptide binding]; other site 699246002255 phosphodiesterase; Provisional; Region: PRK12704 699246002256 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 699246002257 Zn2+ binding site [ion binding]; other site 699246002258 Mg2+ binding site [ion binding]; other site 699246002259 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 699246002260 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 699246002261 putative active site [active] 699246002262 metal binding site [ion binding]; metal-binding site 699246002263 homodimer binding site [polypeptide binding]; other site 699246002264 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 699246002265 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 699246002266 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 699246002267 active site 699246002268 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 699246002269 PhoH-like protein; Region: PhoH; pfam02562 699246002270 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 699246002271 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 699246002272 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 699246002273 Zn2+ binding site [ion binding]; other site 699246002274 Mg2+ binding site [ion binding]; other site 699246002275 metal-binding heat shock protein; Provisional; Region: PRK00016 699246002276 GTPase Era; Reviewed; Region: era; PRK00089 699246002277 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 699246002278 G1 box; other site 699246002279 GTP/Mg2+ binding site [chemical binding]; other site 699246002280 Switch I region; other site 699246002281 G2 box; other site 699246002282 Switch II region; other site 699246002283 G3 box; other site 699246002284 G4 box; other site 699246002285 G5 box; other site 699246002286 KH domain; Region: KH_2; pfam07650 699246002287 DNA repair protein RecO; Region: reco; TIGR00613 699246002288 Recombination protein O N terminal; Region: RecO_N; pfam11967 699246002289 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 699246002290 DEAD_2; Region: DEAD_2; pfam06733 699246002291 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 699246002292 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 699246002293 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 699246002294 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH_2; cd04602 699246002295 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 699246002296 active site 699246002297 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 699246002298 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 699246002299 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 699246002300 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 699246002301 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 699246002302 dimer interface [polypeptide binding]; other site 699246002303 putative anticodon binding site; other site 699246002304 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 699246002305 motif 1; other site 699246002306 active site 699246002307 motif 2; other site 699246002308 motif 3; other site 699246002309 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human...; Region: tRNA_bindingDomain; cl00320 699246002310 putative tRNA-binding site [nucleotide binding]; other site 699246002311 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 699246002312 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 699246002313 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 699246002314 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 699246002315 rRNA interaction site [nucleotide binding]; other site 699246002316 S8 interaction site; other site 699246002317 putative laminin-1 binding site; other site 699246002318 elongation factor Ts; Reviewed; Region: tsf; PRK12332 699246002319 UBA/TS-N domain; Region: UBA; pfam00627 699246002320 Elongation factor TS; Region: EF_TS; pfam00889 699246002321 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 699246002322 putative nucleotide binding site [chemical binding]; other site 699246002323 uridine monophosphate binding site [chemical binding]; other site 699246002324 homohexameric interface [polypeptide binding]; other site 699246002325 ribosome recycling factor; Reviewed; Region: frr; PRK00083 699246002326 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 699246002327 hinge region; other site 699246002328 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 699246002329 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 699246002330 catalytic residue [active] 699246002331 putative FPP diphosphate binding site; other site 699246002332 putative FPP binding hydrophobic cleft; other site 699246002333 dimer interface [polypeptide binding]; other site 699246002334 putative IPP diphosphate binding site; other site 699246002335 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 699246002336 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 699246002337 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 699246002338 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 699246002339 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 699246002340 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 699246002341 RIP metalloprotease RseP; Region: TIGR00054 699246002342 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 699246002343 active site 699246002344 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 699246002345 protein binding site [polypeptide binding]; other site 699246002346 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 699246002347 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 699246002348 putative substrate binding region [chemical binding]; other site 699246002349 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 699246002350 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 699246002351 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 699246002352 DNA polymerase III PolC; Validated; Region: polC; PRK00448 699246002353 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 699246002354 active site 699246002355 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 699246002356 active site 699246002357 catalytic site [active] 699246002358 substrate binding site [chemical binding]; other site 699246002359 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 699246002360 primosomal protein N' Region: priA; TIGR00595 699246002361 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 699246002362 ATP binding site [chemical binding]; other site 699246002363 putative Mg++ binding site [ion binding]; other site 699246002364 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 699246002365 ATP-binding site [chemical binding]; other site 699246002366 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 699246002367 active site 699246002368 catalytic residues [active] 699246002369 metal binding site [ion binding]; metal-binding site 699246002370 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 699246002371 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 699246002372 putative active site [active] 699246002373 substrate binding site [chemical binding]; other site 699246002374 putative cosubstrate binding site; other site 699246002375 catalytic site [active] 699246002376 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 699246002377 substrate binding site [chemical binding]; other site 699246002378 putative RNA binding site [nucleotide binding]; other site 699246002379 NusB family; Region: NusB; pfam01029 699246002380 16S rRNA methyltransferase B; Provisional; Region: PRK14902 699246002381 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 699246002382 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 699246002383 ApbE family; Region: ApbE; pfam02424 699246002384 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 699246002385 metal-binding site [ion binding] 699246002386 Predicted membrane protein [Function unknown]; Region: COG3601 699246002387 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 699246002388 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 699246002389 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 699246002390 active site 699246002391 motif I; other site 699246002392 motif II; other site 699246002393 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 699246002394 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 699246002395 Bacterial sugar transferase; Region: Bac_transf; pfam02397 699246002396 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; cl02331 699246002397 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 699246002398 active site 699246002399 putative DNA-binding cleft [nucleotide binding]; other site 699246002400 dimer interface [polypeptide binding]; other site 699246002401 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 699246002402 RuvA N terminal domain; Region: RuvA_N; pfam01330 699246002403 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 699246002404 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 699246002405 Walker A motif; other site 699246002406 ATP binding site [chemical binding]; other site 699246002407 Walker B motif; other site 699246002408 arginine finger; other site 699246002409 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 699246002410 Uncharacterized BCR, COG1636; Region: DUF208; cl17782 699246002411 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 699246002412 Domain of unknown function (DUF814); Region: DUF814; pfam05670 699246002413 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 699246002414 DNA binding site [nucleotide binding] 699246002415 active site 699246002416 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 699246002417 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 699246002418 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 699246002419 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 699246002420 Coenzyme A binding pocket [chemical binding]; other site 699246002421 oligoendopeptidase F; Region: pepF; TIGR00181 699246002422 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_4; cd09609 699246002423 active site 699246002424 Zn binding site [ion binding]; other site 699246002425 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 699246002426 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 699246002427 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 699246002428 replicative DNA helicase; Region: DnaB; TIGR00665 699246002429 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 699246002430 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 699246002431 Walker A motif; other site 699246002432 ATP binding site [chemical binding]; other site 699246002433 Walker B motif; other site 699246002434 DNA binding loops [nucleotide binding] 699246002435 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 699246002436 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 699246002437 Ligand Binding Site [chemical binding]; other site 699246002438 TilS substrate C-terminal domain; Region: TilS_C; smart00977 699246002439 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 699246002440 active site 699246002441 FtsH Extracellular; Region: FtsH_ext; pfam06480 699246002442 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 699246002443 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 699246002444 Walker A motif; other site 699246002445 ATP binding site [chemical binding]; other site 699246002446 Walker B motif; other site 699246002447 arginine finger; other site 699246002448 Peptidase family M41; Region: Peptidase_M41; pfam01434 699246002449 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 699246002450 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 699246002451 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 699246002452 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK06827 699246002453 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 699246002454 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 699246002455 active site 699246002456 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK06827 699246002457 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 699246002458 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 699246002459 active site 699246002460 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 699246002461 G1 box; other site 699246002462 GTP/Mg2+ binding site [chemical binding]; other site 699246002463 Switch I region; other site 699246002464 G2 box; other site 699246002465 G3 box; other site 699246002466 Switch II region; other site 699246002467 G4 box; other site 699246002468 G5 box; other site 699246002469 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 699246002470 Competence protein; Region: Competence; pfam03772 699246002471 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 699246002472 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 699246002473 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 699246002474 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 699246002475 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 699246002476 Pyruvate formate lyase 1; Region: PFL1; cd01678 699246002477 coenzyme A binding site [chemical binding]; other site 699246002478 active site 699246002479 catalytic residues [active] 699246002480 glycine loop; other site 699246002481 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 699246002482 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 699246002483 FeS/SAM binding site; other site 699246002484 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 699246002485 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 699246002486 ligand binding site [chemical binding]; other site 699246002487 flexible hinge region; other site 699246002488 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 699246002489 putative switch regulator; other site 699246002490 non-specific DNA interactions [nucleotide binding]; other site 699246002491 DNA binding site [nucleotide binding] 699246002492 sequence specific DNA binding site [nucleotide binding]; other site 699246002493 putative cAMP binding site [chemical binding]; other site 699246002494 hypothetical protein; Provisional; Region: PRK05590 699246002495 SEC-C motif; Region: SEC-C; pfam02810 699246002496 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 699246002497 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 699246002498 putative dimer interface [polypeptide binding]; other site 699246002499 putative anticodon binding site; other site 699246002500 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 699246002501 homodimer interface [polypeptide binding]; other site 699246002502 motif 1; other site 699246002503 motif 2; other site 699246002504 active site 699246002505 motif 3; other site 699246002506 hypothetical protein; Reviewed; Region: PRK00024 699246002507 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 699246002508 MPN+ (JAMM) motif; other site 699246002509 Zinc-binding site [ion binding]; other site 699246002510 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 699246002511 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 699246002512 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 699246002513 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 699246002514 active site 699246002515 DNA binding site [nucleotide binding] 699246002516 Int/Topo IB signature motif; other site 699246002517 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 699246002518 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 699246002519 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 699246002520 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 699246002521 ATP binding site [chemical binding]; other site 699246002522 Mg2+ binding site [ion binding]; other site 699246002523 G-X-G motif; other site 699246002524 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 699246002525 ATP binding site [chemical binding]; other site 699246002526 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 699246002527 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 699246002528 MutS domain I; Region: MutS_I; pfam01624 699246002529 MutS domain II; Region: MutS_II; pfam05188 699246002530 MutS domain III; Region: MutS_III; pfam05192 699246002531 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 699246002532 Walker A/P-loop; other site 699246002533 ATP binding site [chemical binding]; other site 699246002534 Q-loop/lid; other site 699246002535 ABC transporter signature motif; other site 699246002536 Walker B; other site 699246002537 D-loop; other site 699246002538 H-loop/switch region; other site 699246002539 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 699246002540 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 699246002541 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 699246002542 FeS/SAM binding site; other site 699246002543 TRAM domain; Region: TRAM; cl01282 699246002544 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 699246002545 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 699246002546 Ligand Binding Site [chemical binding]; other site 699246002547 flagellin modification protein A; Provisional; Region: PRK09186 699246002548 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 699246002549 NAD(P) binding site [chemical binding]; other site 699246002550 active site 699246002551 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 699246002552 catalytic triad [active] 699246002553 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 699246002554 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 699246002555 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 699246002556 active site 699246002557 catalytic site [active] 699246002558 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 699246002559 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 699246002560 RNase E interface [polypeptide binding]; other site 699246002561 trimer interface [polypeptide binding]; other site 699246002562 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 699246002563 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 699246002564 RNase E interface [polypeptide binding]; other site 699246002565 trimer interface [polypeptide binding]; other site 699246002566 active site 699246002567 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 699246002568 putative nucleic acid binding region [nucleotide binding]; other site 699246002569 G-X-X-G motif; other site 699246002570 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 699246002571 RNA binding site [nucleotide binding]; other site 699246002572 domain interface; other site 699246002573 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 699246002574 16S/18S rRNA binding site [nucleotide binding]; other site 699246002575 S13e-L30e interaction site [polypeptide binding]; other site 699246002576 25S rRNA binding site [nucleotide binding]; other site 699246002577 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 699246002578 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 699246002579 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 699246002580 RNA binding surface [nucleotide binding]; other site 699246002581 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 699246002582 Na2 binding site [ion binding]; other site 699246002583 putative substrate binding site 1 [chemical binding]; other site 699246002584 Na binding site 1 [ion binding]; other site 699246002585 putative substrate binding site 2 [chemical binding]; other site 699246002586 Uncharacterized conserved protein [Function unknown]; Region: COG0327 699246002587 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 699246002588 Family of unknown function (DUF633); Region: DUF633; pfam04816 699246002589 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 699246002590 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 699246002591 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 699246002592 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 699246002593 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 699246002594 DNA binding residues [nucleotide binding] 699246002595 DNA primase; Validated; Region: dnaG; PRK05667 699246002596 CHC2 zinc finger; Region: zf-CHC2; pfam01807 699246002597 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 699246002598 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 699246002599 active site 699246002600 metal binding site [ion binding]; metal-binding site 699246002601 interdomain interaction site; other site 699246002602 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 699246002603 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 699246002604 FeS/SAM binding site; other site 699246002605 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 699246002606 Preprotein translocase subunit; Region: YajC; pfam02699 699246002607 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 699246002608 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 699246002609 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 699246002610 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 699246002611 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 699246002612 Glucose inhibited division protein A; Region: GIDA; pfam01134 699246002613 DNA topoisomerase I; Validated; Region: PRK05582 699246002614 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 699246002615 active site 699246002616 interdomain interaction site; other site 699246002617 putative metal-binding site [ion binding]; other site 699246002618 nucleotide binding site [chemical binding]; other site 699246002619 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 699246002620 domain I; other site 699246002621 DNA binding groove [nucleotide binding] 699246002622 phosphate binding site [ion binding]; other site 699246002623 domain II; other site 699246002624 domain III; other site 699246002625 nucleotide binding site [chemical binding]; other site 699246002626 catalytic site [active] 699246002627 domain IV; other site 699246002628 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 699246002629 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 699246002630 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 699246002631 DNA protecting protein DprA; Region: dprA; TIGR00732 699246002632 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 699246002633 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 699246002634 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 699246002635 Walker A motif; other site 699246002636 ATP binding site [chemical binding]; other site 699246002637 Walker B motif; other site 699246002638 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 699246002639 GTP-binding protein YchF; Reviewed; Region: PRK09601 699246002640 YchF GTPase; Region: YchF; cd01900 699246002641 G1 box; other site 699246002642 GTP/Mg2+ binding site [chemical binding]; other site 699246002643 Switch I region; other site 699246002644 G2 box; other site 699246002645 Switch II region; other site 699246002646 G3 box; other site 699246002647 G4 box; other site 699246002648 G5 box; other site 699246002649 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 699246002650 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 699246002651 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 699246002652 CoA-binding site [chemical binding]; other site 699246002653 DNA polymerase I; Provisional; Region: PRK05755 699246002654 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 699246002655 active site 699246002656 metal binding site 1 [ion binding]; metal-binding site 699246002657 putative 5' ssDNA interaction site; other site 699246002658 metal binding site 3; metal-binding site 699246002659 metal binding site 2 [ion binding]; metal-binding site 699246002660 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 699246002661 putative DNA binding site [nucleotide binding]; other site 699246002662 putative metal binding site [ion binding]; other site 699246002663 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 699246002664 active site 699246002665 DNA binding site [nucleotide binding] 699246002666 catalytic site [active] 699246002667 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 699246002668 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 699246002669 active site 699246002670 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 699246002671 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 699246002672 S-adenosylmethionine binding site [chemical binding]; other site 699246002673 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 699246002674 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 699246002675 6-phosphofructokinase; Provisional; Region: PRK14072 699246002676 active site 699246002677 ADP/pyrophosphate binding site [chemical binding]; other site 699246002678 dimerization interface [polypeptide binding]; other site 699246002679 allosteric effector site; other site 699246002680 fructose-1,6-bisphosphate binding site; other site 699246002681 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 699246002682 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 699246002683 active site 699246002684 phosphorylation site [posttranslational modification] 699246002685 intermolecular recognition site; other site 699246002686 dimerization interface [polypeptide binding]; other site 699246002687 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 699246002688 DNA binding site [nucleotide binding] 699246002689 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 699246002690 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 699246002691 dimerization interface [polypeptide binding]; other site 699246002692 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 699246002693 dimer interface [polypeptide binding]; other site 699246002694 phosphorylation site [posttranslational modification] 699246002695 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 699246002696 ATP binding site [chemical binding]; other site 699246002697 Mg2+ binding site [ion binding]; other site 699246002698 G-X-G motif; other site 699246002699 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 699246002700 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 699246002701 RNA binding surface [nucleotide binding]; other site 699246002702 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 699246002703 probable active site [active] 699246002704 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 699246002705 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 699246002706 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 699246002707 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 699246002708 flavoprotein, HI0933 family; Region: TIGR00275 699246002709 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 699246002710 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 699246002711 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 699246002712 Thioesterase-like superfamily; Region: 4HBT_2; pfam13279 699246002713 active site 2 [active] 699246002714 active site 1 [active] 699246002715 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 699246002716 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 699246002717 ring oligomerisation interface [polypeptide binding]; other site 699246002718 ATP/Mg binding site [chemical binding]; other site 699246002719 stacking interactions; other site 699246002720 hinge regions; other site 699246002721 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 699246002722 oligomerisation interface [polypeptide binding]; other site 699246002723 mobile loop; other site 699246002724 roof hairpin; other site 699246002725 Transcriptional regulator [Transcription]; Region: LytR; COG1316 699246002726 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 699246002727 Phosphate transporter family; Region: PHO4; pfam01384 699246002728 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 699246002729 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 699246002730 S-adenosylmethionine binding site [chemical binding]; other site 699246002731 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 699246002732 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 699246002733 active site 699246002734 dimer interface [polypeptide binding]; other site 699246002735 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 699246002736 dimer interface [polypeptide binding]; other site 699246002737 active site 699246002738 tartrate dehydrogenase; Region: TTC; TIGR02089 699246002739 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 699246002740 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 699246002741 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 699246002742 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 699246002743 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 699246002744 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 699246002745 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 699246002746 active site 699246002747 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 699246002748 trimer interface [polypeptide binding]; other site 699246002749 active site 699246002750 G bulge; other site 699246002751 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 699246002752 active site 699246002753 catalytic site [active] 699246002754 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 699246002755 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 699246002756 hypothetical protein; Provisional; Region: PRK13663 699246002757 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 699246002758 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 699246002759 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 699246002760 NodB motif; other site 699246002761 active site 699246002762 catalytic site [active] 699246002763 Zn binding site [ion binding]; other site 699246002764 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 699246002765 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 699246002766 putative substrate binding site [chemical binding]; other site 699246002767 putative ATP binding site [chemical binding]; other site 699246002768 beta-phosphoglucomutase; Region: bPGM; TIGR01990 699246002769 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 699246002770 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 699246002771 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 699246002772 active site 699246002773 catalytic site [active] 699246002774 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 699246002775 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 699246002776 dimer interface [polypeptide binding]; other site 699246002777 conserved gate region; other site 699246002778 putative PBP binding loops; other site 699246002779 ABC-ATPase subunit interface; other site 699246002780 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 699246002781 dimer interface [polypeptide binding]; other site 699246002782 conserved gate region; other site 699246002783 putative PBP binding loops; other site 699246002784 ABC-ATPase subunit interface; other site 699246002785 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 699246002786 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 699246002787 Transcriptional regulators [Transcription]; Region: PurR; COG1609 699246002788 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 699246002789 DNA binding site [nucleotide binding] 699246002790 domain linker motif; other site 699246002791 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 699246002792 dimerization interface [polypeptide binding]; other site 699246002793 ligand binding site [chemical binding]; other site 699246002794 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 699246002795 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 699246002796 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 699246002797 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 699246002798 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 699246002799 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 699246002800 folate binding site [chemical binding]; other site 699246002801 NADP+ binding site [chemical binding]; other site 699246002802 Thymidylate synthase; Region: Thymidylat_synt; pfam00303 699246002803 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 699246002804 dimerization interface [polypeptide binding]; other site 699246002805 active site 699246002806 SLBB domain; Region: SLBB; pfam10531 699246002807 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 699246002808 Helix-hairpin-helix motif; Region: HHH; pfam00633 699246002809 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 699246002810 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 699246002811 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 699246002812 active site 699246002813 (T/H)XGH motif; other site 699246002814 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 699246002815 Protein of unknown function DUF111; Region: DUF111; pfam01969 699246002816 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 699246002817 AIR carboxylase; Region: AIRC; smart01001 699246002818 peptide chain release factor 2; Validated; Region: prfB; PRK00578 699246002819 PCRF domain; Region: PCRF; pfam03462 699246002820 RF-1 domain; Region: RF-1; pfam00472 699246002821 hypothetical protein; Validated; Region: PRK07682 699246002822 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 699246002823 pyridoxal 5'-phosphate binding site [chemical binding]; other site 699246002824 homodimer interface [polypeptide binding]; other site 699246002825 catalytic residue [active] 699246002826 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 699246002827 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 699246002828 AsnC family; Region: AsnC_trans_reg; pfam01037 699246002829 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 699246002830 active site 699246002831 dimerization interface [polypeptide binding]; other site 699246002832 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 699246002833 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 699246002834 S-adenosylmethionine binding site [chemical binding]; other site 699246002835 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 699246002836 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 699246002837 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 699246002838 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 699246002839 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 699246002840 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 699246002841 active site 699246002842 HIGH motif; other site 699246002843 KMSK motif region; other site 699246002844 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 699246002845 tRNA binding surface [nucleotide binding]; other site 699246002846 anticodon binding site; other site 699246002847 glycogen synthase; Provisional; Region: glgA; PRK00654 699246002848 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 699246002849 ADP-binding pocket [chemical binding]; other site 699246002850 homodimer interface [polypeptide binding]; other site 699246002851 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 699246002852 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 699246002853 ligand binding site; other site 699246002854 oligomer interface; other site 699246002855 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 699246002856 dimer interface [polypeptide binding]; other site 699246002857 N-terminal domain interface [polypeptide binding]; other site 699246002858 sulfate 1 binding site; other site 699246002859 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 699246002860 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 699246002861 ligand binding site; other site 699246002862 oligomer interface; other site 699246002863 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 699246002864 dimer interface [polypeptide binding]; other site 699246002865 N-terminal domain interface [polypeptide binding]; other site 699246002866 sulfate 1 binding site; other site 699246002867 glycogen branching enzyme; Provisional; Region: PRK12313 699246002868 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 699246002869 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 699246002870 active site 699246002871 catalytic site [active] 699246002872 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 699246002873 Uncharacterized conserved protein [Function unknown]; Region: COG1284 699246002874 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 699246002875 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 699246002876 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 699246002877 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 699246002878 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 699246002879 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 699246002880 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 699246002881 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 699246002882 S-adenosylmethionine binding site [chemical binding]; other site 699246002883 chaperone protein DnaJ; Provisional; Region: PRK10767 699246002884 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 699246002885 HSP70 interaction site [polypeptide binding]; other site 699246002886 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 699246002887 substrate binding site [polypeptide binding]; other site 699246002888 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 699246002889 Zn binding sites [ion binding]; other site 699246002890 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 699246002891 dimer interface [polypeptide binding]; other site 699246002892 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 699246002893 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 699246002894 nucleotide binding site [chemical binding]; other site 699246002895 NEF interaction site [polypeptide binding]; other site 699246002896 SBD interface [polypeptide binding]; other site 699246002897 GrpE; Region: GrpE; pfam01025 699246002898 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 699246002899 dimer interface [polypeptide binding]; other site 699246002900 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 699246002901 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 699246002902 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 699246002903 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 699246002904 FeS/SAM binding site; other site 699246002905 HemN C-terminal domain; Region: HemN_C; pfam06969 699246002906 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 699246002907 AAA domain; Region: AAA_21; pfam13304 699246002908 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 699246002909 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 699246002910 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 699246002911 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 699246002912 metal binding site [ion binding]; metal-binding site 699246002913 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 699246002914 HSP70 interaction site [polypeptide binding]; other site 699246002915 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 699246002916 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 699246002917 Potassium binding sites [ion binding]; other site 699246002918 Cesium cation binding sites [ion binding]; other site 699246002919 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 699246002920 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 699246002921 active site 699246002922 HIGH motif; other site 699246002923 nucleotide binding site [chemical binding]; other site 699246002924 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 699246002925 active site 699246002926 KMSKS motif; other site 699246002927 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 699246002928 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 699246002929 active site 699246002930 HIGH motif; other site 699246002931 nucleotide binding site [chemical binding]; other site 699246002932 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 699246002933 KMSKS motif; other site 699246002934 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 699246002935 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 699246002936 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 699246002937 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246002938 Walker A/P-loop; other site 699246002939 ATP binding site [chemical binding]; other site 699246002940 Q-loop/lid; other site 699246002941 ABC transporter signature motif; other site 699246002942 Walker B; other site 699246002943 D-loop; other site 699246002944 H-loop/switch region; other site 699246002945 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 699246002946 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 699246002947 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 699246002948 Walker A/P-loop; other site 699246002949 ATP binding site [chemical binding]; other site 699246002950 Q-loop/lid; other site 699246002951 ABC transporter signature motif; other site 699246002952 Walker B; other site 699246002953 D-loop; other site 699246002954 H-loop/switch region; other site 699246002955 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 699246002956 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 699246002957 protein binding site [polypeptide binding]; other site 699246002958 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 699246002959 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 699246002960 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 699246002961 pyruvate kinase; Provisional; Region: PRK06354 699246002962 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 699246002963 domain interfaces; other site 699246002964 active site 699246002965 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 699246002966 Chromate transporter; Region: Chromate_transp; pfam02417 699246002967 Chromate transporter; Region: Chromate_transp; pfam02417 699246002968 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 699246002969 putative active site [active] 699246002970 nucleotide binding site [chemical binding]; other site 699246002971 nudix motif; other site 699246002972 putative metal binding site [ion binding]; other site 699246002973 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 699246002974 Malic enzyme, N-terminal domain; Region: malic; pfam00390 699246002975 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 699246002976 putative NAD(P) binding site [chemical binding]; other site 699246002977 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 699246002978 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 699246002979 Domain of unknown function DUF20; Region: UPF0118; pfam01594 699246002980 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 699246002981 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 699246002982 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 699246002983 FNIP Repeat; Region: FNIP; pfam05725 699246002984 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 699246002985 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 699246002986 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 699246002987 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 699246002988 active site 699246002989 metal binding site [ion binding]; metal-binding site 699246002990 dimerization interface [polypeptide binding]; other site 699246002991 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 699246002992 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 699246002993 active site 699246002994 HIGH motif; other site 699246002995 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 699246002996 KMSKS motif; other site 699246002997 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 699246002998 tRNA binding surface [nucleotide binding]; other site 699246002999 anticodon binding site; other site 699246003000 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 699246003001 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 699246003002 DNA-binding site [nucleotide binding]; DNA binding site 699246003003 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 699246003004 pyridoxal 5'-phosphate binding site [chemical binding]; other site 699246003005 homodimer interface [polypeptide binding]; other site 699246003006 catalytic residue [active] 699246003007 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 699246003008 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 699246003009 active site 699246003010 S-adenosylmethionine synthetase; Validated; Region: PRK05250 699246003011 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 699246003012 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 699246003013 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 699246003014 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 699246003015 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 699246003016 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 699246003017 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 699246003018 ThiS interaction site; other site 699246003019 putative active site [active] 699246003020 tetramer interface [polypeptide binding]; other site 699246003021 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 699246003022 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 699246003023 ATP binding site [chemical binding]; other site 699246003024 substrate interface [chemical binding]; other site 699246003025 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 699246003026 thiS-thiF/thiG interaction site; other site 699246003027 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 699246003028 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 699246003029 ATP binding site [chemical binding]; other site 699246003030 Walker A motif; other site 699246003031 hexamer interface [polypeptide binding]; other site 699246003032 Walker B motif; other site 699246003033 Acyl transferase domain; Region: Acyl_transf_1; cl08282 699246003034 homotrimer interaction site [polypeptide binding]; other site 699246003035 zinc binding site [ion binding]; other site 699246003036 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed; Region: ispF; PRK00084 699246003037 CDP-binding sites; other site 699246003038 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 699246003039 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 699246003040 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 699246003041 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 699246003042 S-adenosylmethionine binding site [chemical binding]; other site 699246003043 GTP-binding protein LepA; Provisional; Region: PRK05433 699246003044 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 699246003045 G1 box; other site 699246003046 putative GEF interaction site [polypeptide binding]; other site 699246003047 GTP/Mg2+ binding site [chemical binding]; other site 699246003048 Switch I region; other site 699246003049 G2 box; other site 699246003050 G3 box; other site 699246003051 Switch II region; other site 699246003052 G4 box; other site 699246003053 G5 box; other site 699246003054 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 699246003055 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 699246003056 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 699246003057 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 699246003058 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 699246003059 Catalytic site [active] 699246003060 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 699246003061 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 699246003062 Catalytic site [active] 699246003063 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 699246003064 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 699246003065 dimer interface [polypeptide binding]; other site 699246003066 anticodon binding site; other site 699246003067 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 699246003068 homodimer interface [polypeptide binding]; other site 699246003069 motif 1; other site 699246003070 active site 699246003071 motif 2; other site 699246003072 GAD domain; Region: GAD; pfam02938 699246003073 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 699246003074 active site 699246003075 motif 3; other site 699246003076 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 699246003077 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 699246003078 dimer interface [polypeptide binding]; other site 699246003079 motif 1; other site 699246003080 active site 699246003081 motif 2; other site 699246003082 motif 3; other site 699246003083 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 699246003084 anticodon binding site; other site 699246003085 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 699246003086 RNA methyltransferase, RsmE family; Region: TIGR00046 699246003087 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 699246003088 active site 699246003089 putative catalytic site [active] 699246003090 DNA binding site [nucleotide binding] 699246003091 putative phosphate binding site [ion binding]; other site 699246003092 metal binding site A [ion binding]; metal-binding site 699246003093 AP binding site [nucleotide binding]; other site 699246003094 metal binding site B [ion binding]; metal-binding site 699246003095 DNA repair protein RadA; Provisional; Region: PRK11823 699246003096 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 699246003097 Walker A motif/ATP binding site; other site 699246003098 ATP binding site [chemical binding]; other site 699246003099 Walker B motif; other site 699246003100 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 699246003101 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 699246003102 substrate binding site; other site 699246003103 dimer interface; other site 699246003104 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 699246003105 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 699246003106 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 699246003107 active site 699246003108 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 699246003109 active site 699246003110 dimer interface [polypeptide binding]; other site 699246003111 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 699246003112 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 699246003113 heterodimer interface [polypeptide binding]; other site 699246003114 active site 699246003115 FMN binding site [chemical binding]; other site 699246003116 homodimer interface [polypeptide binding]; other site 699246003117 substrate binding site [chemical binding]; other site 699246003118 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 699246003119 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 699246003120 FAD binding pocket [chemical binding]; other site 699246003121 FAD binding motif [chemical binding]; other site 699246003122 phosphate binding motif [ion binding]; other site 699246003123 beta-alpha-beta structure motif; other site 699246003124 NAD binding pocket [chemical binding]; other site 699246003125 Iron coordination center [ion binding]; other site 699246003126 dihydroorotase; Validated; Region: pyrC; PRK09357 699246003127 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 699246003128 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 699246003129 active site 699246003130 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 699246003131 active site 699246003132 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 699246003133 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 699246003134 active site 699246003135 Substrate binding site; other site 699246003136 Mg++ binding site; other site 699246003137 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 699246003138 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 699246003139 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 699246003140 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 699246003141 sequence-specific DNA binding site [nucleotide binding]; other site 699246003142 salt bridge; other site 699246003143 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 699246003144 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 699246003145 DNA binding site [nucleotide binding] 699246003146 catalytic residue [active] 699246003147 H2TH interface [polypeptide binding]; other site 699246003148 putative catalytic residues [active] 699246003149 turnover-facilitating residue; other site 699246003150 intercalation triad [nucleotide binding]; other site 699246003151 8OG recognition residue [nucleotide binding]; other site 699246003152 putative reading head residues; other site 699246003153 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 699246003154 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 699246003155 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 699246003156 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 699246003157 active site 699246003158 metal binding site [ion binding]; metal-binding site 699246003159 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 699246003160 IHF - DNA interface [nucleotide binding]; other site 699246003161 IHF dimer interface [polypeptide binding]; other site 699246003162 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 699246003163 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 699246003164 nucleoside/Zn binding site; other site 699246003165 dimer interface [polypeptide binding]; other site 699246003166 catalytic motif [active] 699246003167 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 699246003168 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 699246003169 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 699246003170 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 699246003171 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 699246003172 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 699246003173 Rubredoxin; Region: Rubredoxin; pfam00301 699246003174 iron binding site [ion binding]; other site 699246003175 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 699246003176 GTPase CgtA; Reviewed; Region: obgE; PRK12297 699246003177 GTP1/OBG; Region: GTP1_OBG; pfam01018 699246003178 Obg GTPase; Region: Obg; cd01898 699246003179 G1 box; other site 699246003180 GTP/Mg2+ binding site [chemical binding]; other site 699246003181 Switch I region; other site 699246003182 G2 box; other site 699246003183 G3 box; other site 699246003184 Switch II region; other site 699246003185 G4 box; other site 699246003186 G5 box; other site 699246003187 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 699246003188 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 699246003189 Protein of unknown function (DUF464); Region: DUF464; pfam04327 699246003190 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 699246003191 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 699246003192 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 699246003193 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 699246003194 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 699246003195 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 699246003196 FeS/SAM binding site; other site 699246003197 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 699246003198 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 699246003199 motif II; other site 699246003200 Protein of unknown function (DUF552); Region: DUF552; pfam04472 699246003201 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 699246003202 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 699246003203 catalytic residue [active] 699246003204 HlyD family secretion protein; Region: HlyD_2; pfam12700 699246003205 putative membrane fusion protein; Region: TIGR02828 699246003206 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 699246003207 Aluminium resistance protein; Region: Alum_res; pfam06838 699246003208 arginine deiminase; Provisional; Region: PRK01388 699246003209 MarR family; Region: MarR; pfam01047 699246003210 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 699246003211 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 699246003212 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 699246003213 HTH-like domain; Region: HTH_21; pfam13276 699246003214 Integrase core domain; Region: rve; pfam00665 699246003215 Integrase core domain; Region: rve_2; pfam13333 699246003216 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 699246003217 Helix-turn-helix domain; Region: HTH_28; pfam13518 699246003218 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 699246003219 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 699246003220 FtsX-like permease family; Region: FtsX; pfam02687 699246003221 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 699246003222 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 699246003223 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 699246003224 Walker A/P-loop; other site 699246003225 ATP binding site [chemical binding]; other site 699246003226 Q-loop/lid; other site 699246003227 ABC transporter signature motif; other site 699246003228 Walker B; other site 699246003229 D-loop; other site 699246003230 H-loop/switch region; other site 699246003231 fructuronate transporter; Provisional; Region: PRK10034; cl15264 699246003232 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 699246003233 D-serine dehydratase; Provisional; Region: PRK02991 699246003234 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 699246003235 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 699246003236 catalytic residue [active] 699246003237 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 699246003238 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 699246003239 nucleotide binding pocket [chemical binding]; other site 699246003240 K-X-D-G motif; other site 699246003241 catalytic site [active] 699246003242 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 699246003243 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 699246003244 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 699246003245 Dimer interface [polypeptide binding]; other site 699246003246 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 699246003247 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 699246003248 active site 699246003249 metal binding site [ion binding]; metal-binding site 699246003250 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 699246003251 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 699246003252 Cl binding site [ion binding]; other site 699246003253 oligomer interface [polypeptide binding]; other site 699246003254 Staphylococcal nuclease homologues; Region: SNc; smart00318 699246003255 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 699246003256 Catalytic site; other site 699246003257 Predicted dehydrogenase [General function prediction only]; Region: COG0579 699246003258 hydroxyglutarate oxidase; Provisional; Region: PRK11728 699246003259 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 699246003260 purine nucleoside phosphorylase; Provisional; Region: PRK08202 699246003261 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 699246003262 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 699246003263 ligand binding site [chemical binding]; other site 699246003264 flexible hinge region; other site 699246003265 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 699246003266 putative switch regulator; other site 699246003267 non-specific DNA interactions [nucleotide binding]; other site 699246003268 DNA binding site [nucleotide binding] 699246003269 sequence specific DNA binding site [nucleotide binding]; other site 699246003270 putative cAMP binding site [chemical binding]; other site 699246003271 adenosine deaminase; Provisional; Region: PRK09358 699246003272 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 699246003273 active site 699246003274 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 699246003275 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 699246003276 ligand binding site [chemical binding]; other site 699246003277 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 699246003278 intersubunit interface [polypeptide binding]; other site 699246003279 active site 699246003280 catalytic residue [active] 699246003281 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 699246003282 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 699246003283 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 699246003284 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 699246003285 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 699246003286 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 699246003287 TM-ABC transporter signature motif; other site 699246003288 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 699246003289 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 699246003290 TM-ABC transporter signature motif; other site 699246003291 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 699246003292 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 699246003293 Walker A/P-loop; other site 699246003294 ATP binding site [chemical binding]; other site 699246003295 Q-loop/lid; other site 699246003296 ABC transporter signature motif; other site 699246003297 Walker B; other site 699246003298 D-loop; other site 699246003299 H-loop/switch region; other site 699246003300 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 699246003301 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 699246003302 active site 699246003303 catalytic motif [active] 699246003304 Zn binding site [ion binding]; other site 699246003305 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 699246003306 Flavoprotein; Region: Flavoprotein; pfam02441 699246003307 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 699246003308 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 699246003309 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 699246003310 active site 699246003311 HIGH motif; other site 699246003312 nucleotide binding site [chemical binding]; other site 699246003313 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 699246003314 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 699246003315 active site 699246003316 KMSKS motif; other site 699246003317 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 699246003318 tRNA binding surface [nucleotide binding]; other site 699246003319 anticodon binding site; other site 699246003320 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 699246003321 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 699246003322 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 699246003323 active site 699246003324 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 699246003325 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 699246003326 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 699246003327 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 699246003328 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 699246003329 Walker A/P-loop; other site 699246003330 ATP binding site [chemical binding]; other site 699246003331 Q-loop/lid; other site 699246003332 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 699246003333 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 699246003334 Q-loop/lid; other site 699246003335 ABC transporter signature motif; other site 699246003336 Walker B; other site 699246003337 D-loop; other site 699246003338 H-loop/switch region; other site 699246003339 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 699246003340 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 699246003341 dimerization interface [polypeptide binding]; other site 699246003342 active site 699246003343 metal binding site [ion binding]; metal-binding site 699246003344 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 699246003345 dsRNA binding site [nucleotide binding]; other site 699246003346 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246003347 Walker A/P-loop; other site 699246003348 ATP binding site [chemical binding]; other site 699246003349 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 699246003350 Q-loop/lid; other site 699246003351 ABC transporter signature motif; other site 699246003352 Walker B; other site 699246003353 D-loop; other site 699246003354 H-loop/switch region; other site 699246003355 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 699246003356 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 699246003357 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 699246003358 Walker A/P-loop; other site 699246003359 ATP binding site [chemical binding]; other site 699246003360 Q-loop/lid; other site 699246003361 ABC transporter signature motif; other site 699246003362 Walker B; other site 699246003363 D-loop; other site 699246003364 H-loop/switch region; other site 699246003365 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 699246003366 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 699246003367 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 699246003368 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 699246003369 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 699246003370 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 699246003371 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 699246003372 dimer interface [polypeptide binding]; other site 699246003373 conserved gate region; other site 699246003374 putative PBP binding loops; other site 699246003375 ABC-ATPase subunit interface; other site 699246003376 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 699246003377 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 699246003378 dimer interface [polypeptide binding]; other site 699246003379 conserved gate region; other site 699246003380 putative PBP binding loops; other site 699246003381 ABC-ATPase subunit interface; other site 699246003382 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 699246003383 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 699246003384 acyl carrier protein; Provisional; Region: acpP; PRK00982 699246003385 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 699246003386 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 699246003387 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 699246003388 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 699246003389 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 699246003390 FeS/SAM binding site; other site 699246003391 RecX family; Region: RecX; cl00936 699246003392 recombinase A; Provisional; Region: recA; PRK09354 699246003393 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 699246003394 hexamer interface [polypeptide binding]; other site 699246003395 Walker A motif; other site 699246003396 ATP binding site [chemical binding]; other site 699246003397 Walker B motif; other site 699246003398 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 699246003399 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 699246003400 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 699246003401 competence damage-inducible protein A; Provisional; Region: PRK00549 699246003402 putative MPT binding site; other site 699246003403 Competence-damaged protein; Region: CinA; pfam02464 699246003404 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 699246003405 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 699246003406 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 699246003407 homodimer interface [polypeptide binding]; other site 699246003408 NADP binding site [chemical binding]; other site 699246003409 substrate binding site [chemical binding]; other site 699246003410 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 699246003411 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 699246003412 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 699246003413 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 699246003414 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 699246003415 dimer interface [polypeptide binding]; other site 699246003416 ADP-ribose binding site [chemical binding]; other site 699246003417 active site 699246003418 nudix motif; other site 699246003419 metal binding site [ion binding]; metal-binding site 699246003420 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 699246003421 RNA/DNA hybrid binding site [nucleotide binding]; other site 699246003422 active site 699246003423 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 699246003424 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 699246003425 active site 699246003426 HIGH motif; other site 699246003427 dimer interface [polypeptide binding]; other site 699246003428 KMSKS motif; other site 699246003429 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 699246003430 active site 699246003431 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 699246003432 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 699246003433 active site 699246003434 PHP Thumb interface [polypeptide binding]; other site 699246003435 metal binding site [ion binding]; metal-binding site 699246003436 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 699246003437 generic binding surface I; other site 699246003438 generic binding surface II; other site 699246003439 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 699246003440 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 699246003441 active site 699246003442 substrate binding site [chemical binding]; other site 699246003443 metal binding site [ion binding]; metal-binding site 699246003444 excinuclease ABC subunit B; Provisional; Region: PRK05298 699246003445 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 699246003446 ATP binding site [chemical binding]; other site 699246003447 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 699246003448 ATP binding site [chemical binding]; other site 699246003449 putative Mg++ binding site [ion binding]; other site 699246003450 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 699246003451 nucleotide binding region [chemical binding]; other site 699246003452 ATP-binding site [chemical binding]; other site 699246003453 Ultra-violet resistance protein B; Region: UvrB; pfam12344 699246003454 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 699246003455 ATP binding site [chemical binding]; other site 699246003456 Mg2+ binding site [ion binding]; other site 699246003457 G-X-G motif; other site 699246003458 heat shock protein 90; Provisional; Region: PRK05218 699246003459 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 699246003460 DNA replication protein DnaC; Validated; Region: PRK06835 699246003461 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 699246003462 Walker A motif; other site 699246003463 ATP binding site [chemical binding]; other site 699246003464 Walker B motif; other site 699246003465 arginine finger; other site 699246003466 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 699246003467 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 699246003468 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 699246003469 dimer interface [polypeptide binding]; other site 699246003470 PYR/PP interface [polypeptide binding]; other site 699246003471 TPP binding site [chemical binding]; other site 699246003472 substrate binding site [chemical binding]; other site 699246003473 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 699246003474 Domain of unknown function; Region: EKR; pfam10371 699246003475 4Fe-4S binding domain; Region: Fer4_6; pfam12837 699246003476 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 699246003477 TPP-binding site [chemical binding]; other site 699246003478 dimer interface [polypeptide binding]; other site 699246003479 bifunctional phosphoglycerate kinase/triosephosphate isomerase; Provisional; Region: PRK13962 699246003480 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 699246003481 substrate binding site [chemical binding]; other site 699246003482 hinge regions; other site 699246003483 ADP binding site [chemical binding]; other site 699246003484 catalytic site [active] 699246003485 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 699246003486 substrate binding site [chemical binding]; other site 699246003487 dimer interface [polypeptide binding]; other site 699246003488 catalytic triad [active] 699246003489 Uncharacterized conserved protein [Function unknown]; Region: COG1434 699246003490 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 699246003491 putative active site [active] 699246003492 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 699246003493 FHA domain; Region: FHA; pfam00498 699246003494 phosphopeptide binding site; other site 699246003495 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 699246003496 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 699246003497 TrkA-N domain; Region: TrkA_N; pfam02254 699246003498 TrkA-C domain; Region: TrkA_C; pfam02080 699246003499 TrkA-N domain; Region: TrkA_N; pfam02254 699246003500 TrkA-C domain; Region: TrkA_C; pfam02080 699246003501 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 699246003502 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 699246003503 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 699246003504 MgtE intracellular N domain; Region: MgtE_N; smart00924 699246003505 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 699246003506 Divalent cation transporter; Region: MgtE; pfam01769 699246003507 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 699246003508 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 699246003509 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 699246003510 glycerol kinase; Provisional; Region: glpK; PRK00047 699246003511 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 699246003512 N- and C-terminal domain interface [polypeptide binding]; other site 699246003513 active site 699246003514 MgATP binding site [chemical binding]; other site 699246003515 catalytic site [active] 699246003516 metal binding site [ion binding]; metal-binding site 699246003517 glycerol binding site [chemical binding]; other site 699246003518 homotetramer interface [polypeptide binding]; other site 699246003519 homodimer interface [polypeptide binding]; other site 699246003520 FBP binding site [chemical binding]; other site 699246003521 protein IIAGlc interface [polypeptide binding]; other site 699246003522 Protein of unknown function (DUF3160); Region: DUF3160; pfam11369 699246003523 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 699246003524 CoA-transferase family III; Region: CoA_transf_3; pfam02515 699246003525 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 699246003526 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 699246003527 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 699246003528 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 699246003529 Ligand binding site [chemical binding]; other site 699246003530 Electron transfer flavoprotein domain; Region: ETF; pfam01012 699246003531 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 699246003532 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 699246003533 active site 699246003534 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 699246003535 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 699246003536 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 699246003537 acyl-activating enzyme (AAE) consensus motif; other site 699246003538 acyl-activating enzyme (AAE) consensus motif; other site 699246003539 putative AMP binding site [chemical binding]; other site 699246003540 putative active site [active] 699246003541 putative CoA binding site [chemical binding]; other site 699246003542 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 699246003543 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 699246003544 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 699246003545 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 699246003546 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 699246003547 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 699246003548 Uncharacterized membrane protein [Function unknown]; Region: COG3949 699246003549 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 699246003550 Uncharacterized membrane protein [Function unknown]; Region: COG3949 699246003551 uracil transporter; Provisional; Region: PRK10720 699246003552 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 699246003553 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 699246003554 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 699246003555 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 699246003556 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 699246003557 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 699246003558 active site 699246003559 catalytic triad [active] 699246003560 oxyanion hole [active] 699246003561 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 699246003562 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 699246003563 active site 699246003564 trimer interface [polypeptide binding]; other site 699246003565 allosteric site; other site 699246003566 active site lid [active] 699246003567 hexamer (dimer of trimers) interface [polypeptide binding]; other site 699246003568 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 699246003569 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 699246003570 pyridoxal 5'-phosphate binding site [chemical binding]; other site 699246003571 homodimer interface [polypeptide binding]; other site 699246003572 catalytic residue [active] 699246003573 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 699246003574 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 699246003575 metal binding site [ion binding]; metal-binding site 699246003576 dimer interface [polypeptide binding]; other site 699246003577 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 699246003578 putative catalytic site [active] 699246003579 putative phosphate binding site [ion binding]; other site 699246003580 putative metal binding site [ion binding]; other site 699246003581 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 699246003582 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 699246003583 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246003584 Walker A/P-loop; other site 699246003585 ATP binding site [chemical binding]; other site 699246003586 Q-loop/lid; other site 699246003587 ABC transporter signature motif; other site 699246003588 Walker B; other site 699246003589 D-loop; other site 699246003590 H-loop/switch region; other site 699246003591 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 699246003592 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 699246003593 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246003594 Walker A/P-loop; other site 699246003595 ATP binding site [chemical binding]; other site 699246003596 Q-loop/lid; other site 699246003597 ABC transporter signature motif; other site 699246003598 Walker B; other site 699246003599 D-loop; other site 699246003600 H-loop/switch region; other site 699246003601 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 699246003602 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 699246003603 Walker A/P-loop; other site 699246003604 ATP binding site [chemical binding]; other site 699246003605 Q-loop/lid; other site 699246003606 ABC transporter signature motif; other site 699246003607 Walker B; other site 699246003608 D-loop; other site 699246003609 H-loop/switch region; other site 699246003610 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 699246003611 Walker A/P-loop; other site 699246003612 ATP binding site [chemical binding]; other site 699246003613 Q-loop/lid; other site 699246003614 ABC transporter signature motif; other site 699246003615 Walker B; other site 699246003616 D-loop; other site 699246003617 H-loop/switch region; other site 699246003618 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 699246003619 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 699246003620 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 699246003621 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 699246003622 dimer interface [polypeptide binding]; other site 699246003623 conserved gate region; other site 699246003624 putative PBP binding loops; other site 699246003625 ABC-ATPase subunit interface; other site 699246003626 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 699246003627 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 699246003628 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 699246003629 TPR motif; other site 699246003630 binding surface 699246003631 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 surface protein substrate is...; Region: Sortase; cd00004 699246003632 active site 699246003633 catalytic site [active] 699246003634 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 699246003635 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 699246003636 Walker A/P-loop; other site 699246003637 ATP binding site [chemical binding]; other site 699246003638 Q-loop/lid; other site 699246003639 ABC transporter signature motif; other site 699246003640 Walker B; other site 699246003641 D-loop; other site 699246003642 H-loop/switch region; other site 699246003643 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 699246003644 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 699246003645 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 699246003646 active site pocket [active] 699246003647 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 699246003648 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 699246003649 putative active site [active] 699246003650 putative metal binding site [ion binding]; other site 699246003651 HD domain; Region: HD_4; pfam13328 699246003652 Right handed beta helix region; Region: Beta_helix; pfam13229 699246003653 Caspase domain; Region: Peptidase_C14; pfam00656 699246003654 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 699246003655 Maf-like protein; Region: Maf; pfam02545 699246003656 active site 699246003657 dimer interface [polypeptide binding]; other site 699246003658 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 699246003659 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 699246003660 active site 699246003661 catalytic site [active] 699246003662 metal binding site [ion binding]; metal-binding site 699246003663 dimer interface [polypeptide binding]; other site 699246003664 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 699246003665 MFS/sugar transport protein; Region: MFS_2; pfam13347 699246003666 putative substrate translocation pore; other site 699246003667 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 699246003668 Major Facilitator Superfamily; Region: MFS_1; pfam07690 699246003669 putative substrate translocation pore; other site 699246003670 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 699246003671 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 699246003672 putative catalytic cysteine [active] 699246003673 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 699246003674 putative active site [active] 699246003675 metal binding site [ion binding]; metal-binding site 699246003676 T-box leader 699246003677 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 699246003678 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 699246003679 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 699246003680 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 699246003681 active site 699246003682 dimer interface [polypeptide binding]; other site 699246003683 motif 1; other site 699246003684 motif 2; other site 699246003685 motif 3; other site 699246003686 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 699246003687 anticodon binding site; other site 699246003688 Uncharacterized family 1; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_1; cd10158 699246003689 putative homodimer interface [polypeptide binding]; other site 699246003690 putative homotetramer interface [polypeptide binding]; other site 699246003691 putative metal binding site [ion binding]; other site 699246003692 putative homodimer-homodimer interface [polypeptide binding]; other site 699246003693 putative allosteric switch controlling residues; other site 699246003694 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 699246003695 MarR family; Region: MarR; pfam01047 699246003696 MarR family; Region: MarR_2; cl17246 699246003697 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 699246003698 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 699246003699 FeS/SAM binding site; other site 699246003700 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 699246003701 ATP cone domain; Region: ATP-cone; pfam03477 699246003702 Class III ribonucleotide reductase; Region: RNR_III; cd01675 699246003703 effector binding site; other site 699246003704 active site 699246003705 Zn binding site [ion binding]; other site 699246003706 glycine loop; other site 699246003707 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 699246003708 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 699246003709 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 699246003710 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 699246003711 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 699246003712 AAA domain; Region: AAA_14; pfam13173 699246003713 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 699246003714 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 699246003715 Protein of unknown function, DUF624; Region: DUF624; cl02369 699246003716 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 699246003717 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 699246003718 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 699246003719 dimerization interface [polypeptide binding]; other site 699246003720 putative active cleft [active] 699246003721 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 699246003722 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 699246003723 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 699246003724 putative active site [active] 699246003725 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 699246003726 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 699246003727 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 699246003728 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 699246003729 dimer interface [polypeptide binding]; other site 699246003730 putative PBP binding loops; other site 699246003731 ABC-ATPase subunit interface; other site 699246003732 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 699246003733 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 699246003734 dimer interface [polypeptide binding]; other site 699246003735 conserved gate region; other site 699246003736 putative PBP binding loops; other site 699246003737 ABC-ATPase subunit interface; other site 699246003738 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 699246003739 Class I aldolases; Region: Aldolase_Class_I; cl17187 699246003740 catalytic residue [active] 699246003741 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 699246003742 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 699246003743 active site 699246003744 dimer interface [polypeptide binding]; other site 699246003745 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 699246003746 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 699246003747 Walker A/P-loop; other site 699246003748 ATP binding site [chemical binding]; other site 699246003749 Q-loop/lid; other site 699246003750 ABC transporter signature motif; other site 699246003751 Walker B; other site 699246003752 D-loop; other site 699246003753 H-loop/switch region; other site 699246003754 TOBE domain; Region: TOBE_2; pfam08402 699246003755 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 699246003756 dimer interface [polypeptide binding]; other site 699246003757 substrate binding site [chemical binding]; other site 699246003758 ATP binding site [chemical binding]; other site 699246003759 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 699246003760 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 699246003761 putative ATP binding site [chemical binding]; other site 699246003762 putative substrate interface [chemical binding]; other site 699246003763 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 699246003764 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 699246003765 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 699246003766 catalytic residue [active] 699246003767 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 699246003768 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 699246003769 GtrA-like protein; Region: GtrA; pfam04138 699246003770 5'-nucleotidase; Provisional; Region: PRK03826 699246003771 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 699246003772 Part of AAA domain; Region: AAA_19; pfam13245 699246003773 Family description; Region: UvrD_C_2; pfam13538 699246003774 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 699246003775 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 699246003776 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 699246003777 ATP binding site [chemical binding]; other site 699246003778 putative Mg++ binding site [ion binding]; other site 699246003779 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 699246003780 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 699246003781 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 699246003782 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 699246003783 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 699246003784 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 699246003785 active site 699246003786 DNA binding site [nucleotide binding] 699246003787 Int/Topo IB signature motif; other site 699246003788 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 699246003789 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 699246003790 HsdM N-terminal domain; Region: HsdM_N; pfam12161 699246003791 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 699246003792 Methyltransferase domain; Region: Methyltransf_26; pfam13659 699246003793 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 699246003794 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 699246003795 30S subunit binding site; other site 699246003796 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 699246003797 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 699246003798 DXD motif; other site 699246003799 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 699246003800 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 699246003801 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 699246003802 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 699246003803 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 699246003804 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 699246003805 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 699246003806 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_1; cd13140 699246003807 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 699246003808 Transcriptional regulators [Transcription]; Region: MarR; COG1846 699246003809 MarR family; Region: MarR_2; pfam12802 699246003810 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 699246003811 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 699246003812 active site 699246003813 catalytic triad [active] 699246003814 oxyanion hole [active] 699246003815 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 699246003816 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 699246003817 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 699246003818 catalytic residue [active] 699246003819 CpXC protein; Region: CpXC; pfam14353 699246003820 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 699246003821 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 699246003822 Walker A motif; other site 699246003823 ATP binding site [chemical binding]; other site 699246003824 Walker B motif; other site 699246003825 arginine finger; other site 699246003826 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 699246003827 Walker A motif; other site 699246003828 ATP binding site [chemical binding]; other site 699246003829 Walker B motif; other site 699246003830 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 699246003831 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 699246003832 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 699246003833 ADP binding site [chemical binding]; other site 699246003834 phosphagen binding site; other site 699246003835 substrate specificity loop; other site 699246003836 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 699246003837 UvrB/uvrC motif; Region: UVR; pfam02151 699246003838 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 699246003839 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 699246003840 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 699246003841 active site 699246003842 motif I; other site 699246003843 motif II; other site 699246003844 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 699246003845 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 699246003846 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 699246003847 Soluble P-type ATPase [General function prediction only]; Region: COG4087 699246003848 CAAX protease self-immunity; Region: Abi; pfam02517 699246003849 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 699246003850 Peptidase family U32; Region: Peptidase_U32; pfam01136 699246003851 YceG-like family; Region: YceG; pfam02618 699246003852 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 699246003853 dimerization interface [polypeptide binding]; other site 699246003854 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 699246003855 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 699246003856 G1 box; other site 699246003857 putative GEF interaction site [polypeptide binding]; other site 699246003858 GTP/Mg2+ binding site [chemical binding]; other site 699246003859 Switch I region; other site 699246003860 G2 box; other site 699246003861 G3 box; other site 699246003862 Switch II region; other site 699246003863 G4 box; other site 699246003864 G5 box; other site 699246003865 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 699246003866 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 699246003867 GTP-binding protein Der; Reviewed; Region: PRK00093 699246003868 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 699246003869 G1 box; other site 699246003870 GTP/Mg2+ binding site [chemical binding]; other site 699246003871 Switch I region; other site 699246003872 G2 box; other site 699246003873 Switch II region; other site 699246003874 G3 box; other site 699246003875 G4 box; other site 699246003876 G5 box; other site 699246003877 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 699246003878 G1 box; other site 699246003879 GTP/Mg2+ binding site [chemical binding]; other site 699246003880 Switch I region; other site 699246003881 G2 box; other site 699246003882 G3 box; other site 699246003883 Switch II region; other site 699246003884 G4 box; other site 699246003885 G5 box; other site 699246003886 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 699246003887 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 699246003888 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 699246003889 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 699246003890 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 699246003891 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 699246003892 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 699246003893 motif II; other site 699246003894 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 699246003895 FemAB family; Region: FemAB; pfam02388 699246003896 FemAB family; Region: FemAB; pfam02388 699246003897 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 699246003898 metal ion-dependent adhesion site (MIDAS); other site 699246003899 prolyl-tRNA synthetase; Provisional; Region: PRK08661 699246003900 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_arch_euk; cd00778 699246003901 dimer interface [polypeptide binding]; other site 699246003902 motif 1; other site 699246003903 active site 699246003904 motif 2; other site 699246003905 motif 3; other site 699246003906 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 699246003907 anticodon binding site; other site 699246003908 zinc-binding site [ion binding]; other site 699246003909 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 699246003910 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 699246003911 Probable transposase; Region: OrfB_IS605; pfam01385 699246003912 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 699246003913 Transposase IS200 like; Region: Y1_Tnp; pfam01797 699246003914 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 699246003915 aspartate aminotransferase; Provisional; Region: PRK05764 699246003916 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 699246003917 pyridoxal 5'-phosphate binding site [chemical binding]; other site 699246003918 homodimer interface [polypeptide binding]; other site 699246003919 catalytic residue [active] 699246003920 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 699246003921 catalytic residue [active] 699246003922 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 699246003923 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 699246003924 Walker A/P-loop; other site 699246003925 ATP binding site [chemical binding]; other site 699246003926 Q-loop/lid; other site 699246003927 ABC transporter signature motif; other site 699246003928 Walker B; other site 699246003929 D-loop; other site 699246003930 H-loop/switch region; other site 699246003931 peroxiredoxin; Region: AhpC; TIGR03137 699246003932 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 699246003933 dimer interface [polypeptide binding]; other site 699246003934 decamer (pentamer of dimers) interface [polypeptide binding]; other site 699246003935 catalytic triad [active] 699246003936 peroxidatic and resolving cysteines [active] 699246003937 hypothetical protein; Provisional; Region: PRK09609 699246003938 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 699246003939 alanine-tRNA ligase; Region: PLN02961 699246003940 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 699246003941 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 699246003942 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 699246003943 Soluble P-type ATPase [General function prediction only]; Region: COG4087 699246003944 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 699246003945 dimerization interface [polypeptide binding]; other site 699246003946 putative DNA binding site [nucleotide binding]; other site 699246003947 putative Zn2+ binding site [ion binding]; other site 699246003948 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 699246003949 EamA-like transporter family; Region: EamA; pfam00892 699246003950 EamA-like transporter family; Region: EamA; pfam00892 699246003951 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 699246003952 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 699246003953 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 699246003954 active site 699246003955 catalytic triad [active] 699246003956 dimer interface [polypeptide binding]; other site 699246003957 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 699246003958 homodimer interface [polypeptide binding]; other site 699246003959 NAD binding pocket [chemical binding]; other site 699246003960 ATP binding pocket [chemical binding]; other site 699246003961 Mg binding site [ion binding]; other site 699246003962 active-site loop [active] 699246003963 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 699246003964 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 699246003965 Coenzyme A binding pocket [chemical binding]; other site 699246003966 H+ Antiporter protein; Region: 2A0121; TIGR00900 699246003967 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 699246003968 dimerization interface [polypeptide binding]; other site 699246003969 putative DNA binding site [nucleotide binding]; other site 699246003970 putative Zn2+ binding site [ion binding]; other site 699246003971 potential frameshift: common BLAST hit: gi|257065857|ref|YP_003152113.1| KilA domain protein 699246003972 KilA-N domain; Region: KilA-N; pfam04383 699246003973 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 699246003974 Putative glucose-1-phosphate thymidylyltransferase, C-terminal Left-handed parallel beta-Helix (LbH) domain: Proteins in this family show simlarity to glucose-1-phosphate adenylyltransferases in that they contain N-terminal catalytic domains that...; Region: LbH_G1P_TT_C_like; cd05636 699246003975 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 699246003976 Ligand binding site; other site 699246003977 Putative Catalytic site; other site 699246003978 DXD motif; other site 699246003979 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 699246003980 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 699246003981 active site 699246003982 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 699246003983 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 699246003984 elongation factor G; Reviewed; Region: PRK12740 699246003985 G1 box; other site 699246003986 putative GEF interaction site [polypeptide binding]; other site 699246003987 GTP/Mg2+ binding site [chemical binding]; other site 699246003988 Switch I region; other site 699246003989 G2 box; other site 699246003990 G3 box; other site 699246003991 Switch II region; other site 699246003992 G4 box; other site 699246003993 G5 box; other site 699246003994 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 699246003995 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 699246003996 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 699246003997 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 699246003998 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 699246003999 FMN binding site [chemical binding]; other site 699246004000 active site 699246004001 catalytic residues [active] 699246004002 substrate binding site [chemical binding]; other site 699246004003 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 699246004004 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; cl00454 699246004005 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 699246004006 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 699246004007 Walker A/P-loop; other site 699246004008 ATP binding site [chemical binding]; other site 699246004009 Q-loop/lid; other site 699246004010 ABC transporter signature motif; other site 699246004011 Walker B; other site 699246004012 D-loop; other site 699246004013 H-loop/switch region; other site 699246004014 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 699246004015 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 699246004016 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 699246004017 Walker A/P-loop; other site 699246004018 ATP binding site [chemical binding]; other site 699246004019 Q-loop/lid; other site 699246004020 ABC transporter signature motif; other site 699246004021 Walker B; other site 699246004022 D-loop; other site 699246004023 H-loop/switch region; other site 699246004024 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 699246004025 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 699246004026 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 699246004027 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 699246004028 dimer interface [polypeptide binding]; other site 699246004029 conserved gate region; other site 699246004030 putative PBP binding loops; other site 699246004031 ABC-ATPase subunit interface; other site 699246004032 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 699246004033 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 699246004034 dimer interface [polypeptide binding]; other site 699246004035 conserved gate region; other site 699246004036 putative PBP binding loops; other site 699246004037 ABC-ATPase subunit interface; other site 699246004038 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 699246004039 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 699246004040 transcription-repair coupling factor (mfd); Region: mfd; TIGR00580 699246004041 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 699246004042 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 699246004043 ATP binding site [chemical binding]; other site 699246004044 putative Mg++ binding site [ion binding]; other site 699246004045 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 699246004046 nucleotide binding region [chemical binding]; other site 699246004047 ATP-binding site [chemical binding]; other site 699246004048 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 699246004049 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 699246004050 putative active site [active] 699246004051 catalytic residue [active] 699246004052 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 699246004053 putative active site [active] 699246004054 dimerization interface [polypeptide binding]; other site 699246004055 putative tRNAtyr binding site [nucleotide binding]; other site 699246004056 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 699246004057 active site 699246004058 homodimer interface [polypeptide binding]; other site 699246004059 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 699246004060 Aspartase; Region: Aspartase; cd01357 699246004061 active sites [active] 699246004062 tetramer interface [polypeptide binding]; other site 699246004063 ambiguous bases; PCR confirmed variable region of six versus seven T's 699246004064 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 699246004065 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 699246004066 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 699246004067 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 699246004068 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 699246004069 synthetase active site [active] 699246004070 NTP binding site [chemical binding]; other site 699246004071 metal binding site [ion binding]; metal-binding site 699246004072 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 699246004073 EamA-like transporter family; Region: EamA; pfam00892 699246004074 Abi-like protein; Region: Abi_2; cl01988 699246004075 RelB antitoxin; Region: RelB; cl01171 699246004076 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 699246004077 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 699246004078 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 699246004079 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 699246004080 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 699246004081 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 699246004082 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 699246004083 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 699246004084 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 699246004085 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 699246004086 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 699246004087 acyl-activating enzyme (AAE) consensus motif; other site 699246004088 acyl-activating enzyme (AAE) consensus motif; other site 699246004089 putative AMP binding site [chemical binding]; other site 699246004090 putative active site [active] 699246004091 putative CoA binding site [chemical binding]; other site 699246004092 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 699246004093 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 699246004094 DRTGG domain; Region: DRTGG; pfam07085 699246004095 DHH family; Region: DHH; pfam01368 699246004096 DHHA2 domain; Region: DHHA2; pfam02833 699246004097 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 699246004098 transmembrane helices; other site 699246004099 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 699246004100 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 699246004101 fumarate hydratase; Reviewed; Region: fumC; PRK00485 699246004102 Class II fumarases; Region: Fumarase_classII; cd01362 699246004103 active site 699246004104 tetramer interface [polypeptide binding]; other site 699246004105 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 699246004106 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 699246004107 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 699246004108 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 699246004109 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 699246004110 active site 699246004111 catalytic site [active] 699246004112 metal binding site [ion binding]; metal-binding site 699246004113 conserved hypothetical integral membrane protein TIGR02185; Region: Trep_Strep 699246004114 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 699246004115 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 699246004116 dimer interface [polypeptide binding]; other site 699246004117 conserved gate region; other site 699246004118 putative PBP binding loops; other site 699246004119 ABC-ATPase subunit interface; other site 699246004120 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 699246004121 hypothetical protein; Provisional; Region: PRK11622 699246004122 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 699246004123 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246004124 Walker A/P-loop; other site 699246004125 ATP binding site [chemical binding]; other site 699246004126 Q-loop/lid; other site 699246004127 ABC transporter signature motif; other site 699246004128 Walker B; other site 699246004129 D-loop; other site 699246004130 H-loop/switch region; other site 699246004131 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 699246004132 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 699246004133 dimer interface [polypeptide binding]; other site 699246004134 conserved gate region; other site 699246004135 putative PBP binding loops; other site 699246004136 ABC-ATPase subunit interface; other site 699246004137 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 699246004138 MgtC family; Region: MgtC; pfam02308 699246004139 MgtC family; Region: MgtC; pfam02308 699246004140 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 699246004141 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 699246004142 Coenzyme A binding pocket [chemical binding]; other site 699246004143 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 699246004144 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 699246004145 substrate binding site [chemical binding]; other site 699246004146 ATP binding site [chemical binding]; other site 699246004147 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 699246004148 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 699246004149 Walker A/P-loop; other site 699246004150 ATP binding site [chemical binding]; other site 699246004151 Q-loop/lid; other site 699246004152 ABC transporter signature motif; other site 699246004153 Walker B; other site 699246004154 D-loop; other site 699246004155 H-loop/switch region; other site 699246004156 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 699246004157 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 699246004158 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 699246004159 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 699246004160 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 699246004161 catalytic residue [active] 699246004162 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 699246004163 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 699246004164 trimerization site [polypeptide binding]; other site 699246004165 active site 699246004166 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 699246004167 FeS assembly protein SufB; Region: sufB; TIGR01980 699246004168 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 699246004169 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 699246004170 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 699246004171 active site 699246004172 Zn binding site [ion binding]; other site 699246004173 Nucleoside recognition; Region: Gate; pfam07670 699246004174 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 699246004175 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 699246004176 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 699246004177 carbamate kinase; Reviewed; Region: PRK12686 699246004178 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 699246004179 putative substrate binding site [chemical binding]; other site 699246004180 nucleotide binding site [chemical binding]; other site 699246004181 nucleotide binding site [chemical binding]; other site 699246004182 homodimer interface [polypeptide binding]; other site 699246004183 ornithine carbamoyltransferase; Validated; Region: PRK02102 699246004184 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 699246004185 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 699246004186 Helix-turn-helix domain; Region: HTH_18; pfam12833 699246004187 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 699246004188 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 699246004189 Saccharopine dehydrogenase N-terminal domain; Region: SDH_N_domain; cl04528 699246004190 Uncharacterized conserved protein [Function unknown]; Region: COG1915 699246004191 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 699246004192 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 699246004193 active site 699246004194 substrate binding site [chemical binding]; other site 699246004195 metal binding site [ion binding]; metal-binding site 699246004196 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 699246004197 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 699246004198 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 699246004199 ATP-grasp domain; Region: ATP-grasp_4; cl17255 699246004200 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 699246004201 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 699246004202 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 699246004203 active site 699246004204 (T/H)XGH motif; other site 699246004205 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 699246004206 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 699246004207 S-adenosylmethionine binding site [chemical binding]; other site 699246004208 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 699246004209 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 699246004210 generic binding surface II; other site 699246004211 ssDNA binding site; other site 699246004212 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 699246004213 ATP binding site [chemical binding]; other site 699246004214 putative Mg++ binding site [ion binding]; other site 699246004215 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 699246004216 nucleotide binding region [chemical binding]; other site 699246004217 ATP-binding site [chemical binding]; other site 699246004218 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 699246004219 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 699246004220 minor groove reading motif; other site 699246004221 helix-hairpin-helix signature motif; other site 699246004222 substrate binding pocket [chemical binding]; other site 699246004223 active site 699246004224 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 699246004225 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 699246004226 HAMP domain; Region: HAMP; pfam00672 699246004227 dimerization interface [polypeptide binding]; other site 699246004228 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 699246004229 dimer interface [polypeptide binding]; other site 699246004230 phosphorylation site [posttranslational modification] 699246004231 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 699246004232 ATP binding site [chemical binding]; other site 699246004233 Mg2+ binding site [ion binding]; other site 699246004234 G-X-G motif; other site 699246004235 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 699246004236 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 699246004237 active site 699246004238 phosphorylation site [posttranslational modification] 699246004239 intermolecular recognition site; other site 699246004240 dimerization interface [polypeptide binding]; other site 699246004241 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 699246004242 DNA binding site [nucleotide binding] 699246004243 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 699246004244 ATP cone domain; Region: ATP-cone; pfam03477 699246004245 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 699246004246 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 699246004247 nucleotide binding site [chemical binding]; other site 699246004248 SulA interaction site; other site 699246004249 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 699246004250 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 699246004251 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 699246004252 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 699246004253 homodimer interface [polypeptide binding]; other site 699246004254 active site 699246004255 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 699246004256 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 699246004257 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 699246004258 Mg++ binding site [ion binding]; other site 699246004259 putative catalytic motif [active] 699246004260 putative substrate binding site [chemical binding]; other site 699246004261 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 699246004262 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 699246004263 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 699246004264 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 699246004265 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 699246004266 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 699246004267 MraW methylase family; Region: Methyltransf_5; cl17771 699246004268 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 699246004269 Uncharacterized conserved protein [Function unknown]; Region: COG2461 699246004270 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 699246004271 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 699246004272 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 699246004273 Walker A/P-loop; other site 699246004274 ATP binding site [chemical binding]; other site 699246004275 Q-loop/lid; other site 699246004276 ABC transporter signature motif; other site 699246004277 Walker B; other site 699246004278 D-loop; other site 699246004279 H-loop/switch region; other site 699246004280 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 699246004281 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 699246004282 Walker A/P-loop; other site 699246004283 ATP binding site [chemical binding]; other site 699246004284 Q-loop/lid; other site 699246004285 ABC transporter signature motif; other site 699246004286 Walker B; other site 699246004287 D-loop; other site 699246004288 H-loop/switch region; other site 699246004289 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 699246004290 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 699246004291 magnesium-transporting ATPase; Provisional; Region: PRK15122 699246004292 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 699246004293 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 699246004294 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 699246004295 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 699246004296 Soluble P-type ATPase [General function prediction only]; Region: COG4087 699246004297 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 699246004298 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 699246004299 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 699246004300 metal binding site [ion binding]; metal-binding site 699246004301 dimer interface [polypeptide binding]; other site 699246004302 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 699246004303 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 699246004304 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 699246004305 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 699246004306 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 699246004307 dimer interface [polypeptide binding]; other site 699246004308 conserved gate region; other site 699246004309 ABC-ATPase subunit interface; other site 699246004310 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 699246004311 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 699246004312 ABC-ATPase subunit interface; other site 699246004313 Tetratricopeptide repeat; Region: TPR_16; pfam13432 699246004314 Yip1 domain; Region: Yip1; pfam04893 699246004315 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 699246004316 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 699246004317 dimer interface [polypeptide binding]; other site 699246004318 conserved gate region; other site 699246004319 putative PBP binding loops; other site 699246004320 ABC-ATPase subunit interface; other site 699246004321 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 699246004322 dimer interface [polypeptide binding]; other site 699246004323 conserved gate region; other site 699246004324 putative PBP binding loops; other site 699246004325 ABC-ATPase subunit interface; other site 699246004326 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 699246004327 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 699246004328 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 699246004329 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 699246004330 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 699246004331 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 699246004332 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 699246004333 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 699246004334 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 699246004335 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 699246004336 Carbohydrate Binding Module family 35 (CBM35); appended mainly to enzymes that bind alpha-D-galactose (CBM35-Gal), including glycoside hydrolase (GH) families GH31 and GH43; Region: CBM35_galactosidase-like; cd04081 699246004337 Ca binding site [ion binding]; other site 699246004338 Cupin domain; Region: Cupin_2; pfam07883 699246004339 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 699246004340 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 699246004341 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 699246004342 Response regulator receiver domain; Region: Response_reg; pfam00072 699246004343 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 699246004344 active site 699246004345 phosphorylation site [posttranslational modification] 699246004346 intermolecular recognition site; other site 699246004347 dimerization interface [polypeptide binding]; other site 699246004348 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 699246004349 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 699246004350 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 699246004351 Histidine kinase; Region: His_kinase; pfam06580 699246004352 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 699246004353 Mg2+ binding site [ion binding]; other site 699246004354 G-X-G motif; other site 699246004355 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 699246004356 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 699246004357 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246004358 Walker A/P-loop; other site 699246004359 ATP binding site [chemical binding]; other site 699246004360 Q-loop/lid; other site 699246004361 ABC transporter signature motif; other site 699246004362 Walker B; other site 699246004363 D-loop; other site 699246004364 H-loop/switch region; other site 699246004365 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 699246004366 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 699246004367 dimer interface [polypeptide binding]; other site 699246004368 conserved gate region; other site 699246004369 putative PBP binding loops; other site 699246004370 ABC-ATPase subunit interface; other site 699246004371 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 699246004372 dimer interface [polypeptide binding]; other site 699246004373 conserved gate region; other site 699246004374 putative PBP binding loops; other site 699246004375 ABC-ATPase subunit interface; other site 699246004376 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 699246004377 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246004378 Walker A/P-loop; other site 699246004379 ATP binding site [chemical binding]; other site 699246004380 Q-loop/lid; other site 699246004381 ABC transporter signature motif; other site 699246004382 Walker B; other site 699246004383 D-loop; other site 699246004384 H-loop/switch region; other site 699246004385 TOBE domain; Region: TOBE_2; pfam08402 699246004386 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 699246004387 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 699246004388 Cna protein B-type domain; Region: Cna_B; pfam05738 699246004389 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 699246004390 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 699246004391 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 699246004392 Probable transposase; Region: OrfB_IS605; pfam01385 699246004393 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 699246004394 Uncharacterized distant relative of cell wall-associated hydrolases [Function unknown]; Region: COG3863 699246004395 FemAB family; Region: FemAB; pfam02388 699246004396 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 699246004397 Response regulator receiver domain; Region: Response_reg; pfam00072 699246004398 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 699246004399 active site 699246004400 phosphorylation site [posttranslational modification] 699246004401 intermolecular recognition site; other site 699246004402 dimerization interface [polypeptide binding]; other site 699246004403 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 699246004404 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 699246004405 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 699246004406 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 699246004407 dimerization interface [polypeptide binding]; other site 699246004408 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 699246004409 Histidine kinase; Region: His_kinase; pfam06580 699246004410 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 699246004411 ATP binding site [chemical binding]; other site 699246004412 Mg2+ binding site [ion binding]; other site 699246004413 G-X-G motif; other site 699246004414 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 699246004415 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 699246004416 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246004417 AAA domain; Region: AAA_21; pfam13304 699246004418 Walker A/P-loop; other site 699246004419 ATP binding site [chemical binding]; other site 699246004420 Q-loop/lid; other site 699246004421 ABC transporter signature motif; other site 699246004422 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246004423 ABC transporter signature motif; other site 699246004424 Walker B; other site 699246004425 D-loop; other site 699246004426 H-loop/switch region; other site 699246004427 TOBE domain; Region: TOBE_2; pfam08402 699246004428 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 699246004429 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 699246004430 dimer interface [polypeptide binding]; other site 699246004431 conserved gate region; other site 699246004432 putative PBP binding loops; other site 699246004433 ABC-ATPase subunit interface; other site 699246004434 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 699246004435 dimer interface [polypeptide binding]; other site 699246004436 conserved gate region; other site 699246004437 ABC-ATPase subunit interface; other site 699246004438 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 699246004439 AMP-binding enzyme; Region: AMP-binding; pfam00501 699246004440 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 699246004441 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 699246004442 acyl-activating enzyme (AAE) consensus motif; other site 699246004443 AMP binding site [chemical binding]; other site 699246004444 active site 699246004445 CoA binding site [chemical binding]; other site 699246004446 Predicted transcriptional regulators [Transcription]; Region: COG1378 699246004447 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 699246004448 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 699246004449 C-terminal domain interface [polypeptide binding]; other site 699246004450 sugar binding site [chemical binding]; other site 699246004451 ornithine cyclodeaminase; Validated; Region: PRK08618 699246004452 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 699246004453 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 699246004454 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 699246004455 N- and C-terminal domain interface [polypeptide binding]; other site 699246004456 active site 699246004457 MgATP binding site [chemical binding]; other site 699246004458 catalytic site [active] 699246004459 metal binding site [ion binding]; metal-binding site 699246004460 xylulose binding site [chemical binding]; other site 699246004461 homodimer interface [polypeptide binding]; other site 699246004462 xylose isomerase; Provisional; Region: PRK05474 699246004463 xylose isomerase; Region: xylose_isom_A; TIGR02630 699246004464 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 699246004465 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 699246004466 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 699246004467 pyridoxal 5'-phosphate binding site [chemical binding]; other site 699246004468 homodimer interface [polypeptide binding]; other site 699246004469 catalytic residue [active] 699246004470 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 699246004471 active site 699246004472 catalytic residues [active] 699246004473 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 699246004474 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 699246004475 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 699246004476 nucleotide binding site [chemical binding]; other site 699246004477 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 699246004478 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 699246004479 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 699246004480 active site 699246004481 tetramer interface [polypeptide binding]; other site 699246004482 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 699246004483 active site 699246004484 tetramer interface [polypeptide binding]; other site 699246004485 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 699246004486 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 699246004487 TM-ABC transporter signature motif; other site 699246004488 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 699246004489 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 699246004490 TM-ABC transporter signature motif; other site 699246004491 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 699246004492 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 699246004493 Walker A/P-loop; other site 699246004494 ATP binding site [chemical binding]; other site 699246004495 Q-loop/lid; other site 699246004496 ABC transporter signature motif; other site 699246004497 Walker B; other site 699246004498 D-loop; other site 699246004499 H-loop/switch region; other site 699246004500 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 699246004501 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 699246004502 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 699246004503 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 699246004504 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 699246004505 substrate binding site [chemical binding]; other site 699246004506 dimer interface [polypeptide binding]; other site 699246004507 ATP binding site [chemical binding]; other site 699246004508 myosin-cross-reactive antigen; Provisional; Region: PRK13977 699246004509 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 699246004510 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 699246004511 salt bridge; other site 699246004512 non-specific DNA binding site [nucleotide binding]; other site 699246004513 sequence-specific DNA binding site [nucleotide binding]; other site 699246004514 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 699246004515 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 699246004516 CoenzymeA binding site [chemical binding]; other site 699246004517 subunit interaction site [polypeptide binding]; other site 699246004518 PHB binding site; other site 699246004519 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 699246004520 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 699246004521 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 699246004522 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 699246004523 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 699246004524 active site 699246004525 Riboflavin kinase; Region: Flavokinase; pfam01687 699246004526 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 699246004527 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 699246004528 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 699246004529 RNA binding site [nucleotide binding]; other site 699246004530 active site 699246004531 DHH family; Region: DHH; pfam01368 699246004532 Ribosome-binding factor A; Region: RBFA; pfam02033 699246004533 translation initiation factor IF-2; Validated; Region: infB; PRK05306 699246004534 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 699246004535 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 699246004536 G1 box; other site 699246004537 putative GEF interaction site [polypeptide binding]; other site 699246004538 GTP/Mg2+ binding site [chemical binding]; other site 699246004539 Switch I region; other site 699246004540 G2 box; other site 699246004541 G3 box; other site 699246004542 Switch II region; other site 699246004543 G4 box; other site 699246004544 G5 box; other site 699246004545 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 699246004546 Translation-initiation factor 2; Region: IF-2; pfam11987 699246004547 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 699246004548 Protein of unknown function (DUF448); Region: DUF448; pfam04296 699246004549 putative RNA binding cleft [nucleotide binding]; other site 699246004550 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 699246004551 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 699246004552 NusA N-terminal domain; Region: NusA_N; pfam08529 699246004553 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 699246004554 RNA binding site [nucleotide binding]; other site 699246004555 homodimer interface [polypeptide binding]; other site 699246004556 NusA-like KH domain; Region: KH_5; pfam13184 699246004557 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 699246004558 G-X-X-G motif; other site 699246004559 ribosome maturation protein RimP; Reviewed; Region: PRK00092 699246004560 Sm and related proteins; Region: Sm_like; cl00259 699246004561 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 699246004562 putative oligomer interface [polypeptide binding]; other site 699246004563 putative RNA binding site [nucleotide binding]; other site 699246004564 RelB antitoxin; Region: RelB; cl01171 699246004565 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 699246004566 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 699246004567 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 699246004568 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 699246004569 Walker A/P-loop; other site 699246004570 ATP binding site [chemical binding]; other site 699246004571 Q-loop/lid; other site 699246004572 ABC transporter signature motif; other site 699246004573 Walker B; other site 699246004574 D-loop; other site 699246004575 H-loop/switch region; other site 699246004576 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 699246004577 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 699246004578 FtsX-like permease family; Region: FtsX; pfam02687 699246004579 Domain of unknown function (DUF4418); Region: DUF4418; pfam14387 699246004580 FMN-binding domain; Region: FMN_bind; pfam04205 699246004581 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 699246004582 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 699246004583 Walker A/P-loop; other site 699246004584 ATP binding site [chemical binding]; other site 699246004585 Q-loop/lid; other site 699246004586 ABC transporter signature motif; other site 699246004587 Walker B; other site 699246004588 D-loop; other site 699246004589 H-loop/switch region; other site 699246004590 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 699246004591 FtsX-like permease family; Region: FtsX; pfam02687 699246004592 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 699246004593 Predicted membrane protein [Function unknown]; Region: COG4393 699246004594 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 699246004595 Fe2+ transport protein; Region: Iron_transport; cl01377 699246004596 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 699246004597 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 699246004598 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 699246004599 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 699246004600 dimerization interface [polypeptide binding]; other site 699246004601 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 699246004602 This family represents an uncharacterized glycosyl hydrolase family 31 (GH31) enzyme found in bacteria and eukaryotes that is related to the XylS xylosidase of Sulfolobus solfataricus. Alpha-xylosidases catalyze the release of an alpha-xylose residue...; Region: GH31_xylosidase_XylS-like; cd06595 699246004603 putative active site [active] 699246004604 putative catalytic site [active] 699246004605 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 699246004606 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 699246004607 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 699246004608 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 699246004609 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 699246004610 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 699246004611 Walker A/P-loop; other site 699246004612 ATP binding site [chemical binding]; other site 699246004613 Q-loop/lid; other site 699246004614 ABC transporter signature motif; other site 699246004615 Walker B; other site 699246004616 D-loop; other site 699246004617 H-loop/switch region; other site 699246004618 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 699246004619 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 699246004620 Walker A/P-loop; other site 699246004621 ATP binding site [chemical binding]; other site 699246004622 Q-loop/lid; other site 699246004623 ABC transporter signature motif; other site 699246004624 Walker B; other site 699246004625 D-loop; other site 699246004626 H-loop/switch region; other site 699246004627 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 699246004628 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 699246004629 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 699246004630 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 699246004631 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 699246004632 dimer interface [polypeptide binding]; other site 699246004633 conserved gate region; other site 699246004634 ABC-ATPase subunit interface; other site 699246004635 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 699246004636 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 699246004637 dimer interface [polypeptide binding]; other site 699246004638 conserved gate region; other site 699246004639 putative PBP binding loops; other site 699246004640 ABC-ATPase subunit interface; other site 699246004641 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 699246004642 S-adenosylmethionine binding site [chemical binding]; other site 699246004643 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 699246004644 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 699246004645 tetramer (dimer of dimers) interface [polypeptide binding]; other site 699246004646 NAD binding site [chemical binding]; other site 699246004647 dimer interface [polypeptide binding]; other site 699246004648 substrate binding site [chemical binding]; other site 699246004649 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 699246004650 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 699246004651 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 699246004652 acyl-activating enzyme (AAE) consensus motif; other site 699246004653 acyl-activating enzyme (AAE) consensus motif; other site 699246004654 putative AMP binding site [chemical binding]; other site 699246004655 putative active site [active] 699246004656 putative CoA binding site [chemical binding]; other site 699246004657 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 699246004658 non-specific DNA binding site [nucleotide binding]; other site 699246004659 salt bridge; other site 699246004660 sequence-specific DNA binding site [nucleotide binding]; other site 699246004661 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 699246004662 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 699246004663 pyridoxal 5'-phosphate binding site [chemical binding]; other site 699246004664 homodimer interface [polypeptide binding]; other site 699246004665 catalytic residue [active] 699246004666 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 699246004667 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 699246004668 nitrogenase reductase-like protein; Reviewed; Region: PRK13231 699246004669 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 699246004670 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 699246004671 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 699246004672 intersubunit interface [polypeptide binding]; other site 699246004673 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 699246004674 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 699246004675 ABC-ATPase subunit interface; other site 699246004676 dimer interface [polypeptide binding]; other site 699246004677 putative PBP binding regions; other site 699246004678 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 699246004679 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 699246004680 Walker A/P-loop; other site 699246004681 ATP binding site [chemical binding]; other site 699246004682 Q-loop/lid; other site 699246004683 ABC transporter signature motif; other site 699246004684 Walker B; other site 699246004685 D-loop; other site 699246004686 H-loop/switch region; other site 699246004687 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cd00316 699246004688 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 699246004689 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 699246004690 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 699246004691 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 699246004692 EamA-like transporter family; Region: EamA; pfam00892 699246004693 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 699246004694 EamA-like transporter family; Region: EamA; pfam00892 699246004695 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 699246004696 Isochorismatase family; Region: Isochorismatase; pfam00857 699246004697 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 699246004698 catalytic triad [active] 699246004699 conserved cis-peptide bond; other site 699246004700 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 699246004701 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 699246004702 metal binding site [ion binding]; metal-binding site 699246004703 Peptidase family M20/M25/M40; Region: Peptidase_M20; pfam01546 699246004704 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 699246004705 domain interaction interfaces [polypeptide binding]; other site 699246004706 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 699246004707 active site 699246004708 catalytic site [active] 699246004709 substrate binding site [chemical binding]; other site 699246004710 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 699246004711 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 699246004712 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 699246004713 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 699246004714 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 699246004715 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 699246004716 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 699246004717 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 699246004718 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 699246004719 DNA binding site [nucleotide binding] 699246004720 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 699246004721 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 699246004722 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 699246004723 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 699246004724 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 699246004725 RPB1 interaction site [polypeptide binding]; other site 699246004726 RPB10 interaction site [polypeptide binding]; other site 699246004727 RPB11 interaction site [polypeptide binding]; other site 699246004728 RPB3 interaction site [polypeptide binding]; other site 699246004729 RPB12 interaction site [polypeptide binding]; other site 699246004730 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 699246004731 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 699246004732 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246004733 Walker A/P-loop; other site 699246004734 ATP binding site [chemical binding]; other site 699246004735 Q-loop/lid; other site 699246004736 ABC transporter signature motif; other site 699246004737 Walker B; other site 699246004738 D-loop; other site 699246004739 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 699246004740 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 699246004741 Active site serine [active] 699246004742 radical SAM/SPASM domain Clo7bot peptide maturase; Region: rSAM_Clo7bot; TIGR04334 699246004743 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 699246004744 FeS/SAM binding site; other site 699246004745 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 699246004746 thymidine kinase; Provisional; Region: PRK04296 699246004747 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 699246004748 ATP binding site [chemical binding]; other site 699246004749 Walker A motif; other site 699246004750 Walker B motif; other site 699246004751 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 699246004752 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 699246004753 Ca binding site [ion binding]; other site 699246004754 active site 699246004755 catalytic site [active] 699246004756 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 699246004757 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 699246004758 dimer interface [polypeptide binding]; other site 699246004759 conserved gate region; other site 699246004760 putative PBP binding loops; other site 699246004761 ABC-ATPase subunit interface; other site 699246004762 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 699246004763 dimer interface [polypeptide binding]; other site 699246004764 conserved gate region; other site 699246004765 putative PBP binding loops; other site 699246004766 ABC-ATPase subunit interface; other site 699246004767 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 699246004768 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 699246004769 pullulanase, type I; Region: pulA_typeI; TIGR02104 699246004770 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 699246004771 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 699246004772 Ca binding site [ion binding]; other site 699246004773 active site 699246004774 catalytic site [active] 699246004775 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 699246004776 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 699246004777 Ca binding site [ion binding]; other site 699246004778 active site 699246004779 catalytic site [active] 699246004780 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 699246004781 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 699246004782 Domain of unknown function DUF21; Region: DUF21; pfam01595 699246004783 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 699246004784 Transporter associated domain; Region: CorC_HlyC; pfam03471 699246004785 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 699246004786 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 699246004787 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 699246004788 dimer interface [polypeptide binding]; other site 699246004789 phosphorylation site [posttranslational modification] 699246004790 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 699246004791 ATP binding site [chemical binding]; other site 699246004792 Mg2+ binding site [ion binding]; other site 699246004793 G-X-G motif; other site 699246004794 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 699246004795 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 699246004796 active site 699246004797 phosphorylation site [posttranslational modification] 699246004798 intermolecular recognition site; other site 699246004799 dimerization interface [polypeptide binding]; other site 699246004800 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 699246004801 DNA binding site [nucleotide binding] 699246004802 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 699246004803 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 699246004804 Walker A/P-loop; other site 699246004805 ATP binding site [chemical binding]; other site 699246004806 Q-loop/lid; other site 699246004807 ABC transporter signature motif; other site 699246004808 Walker B; other site 699246004809 D-loop; other site 699246004810 H-loop/switch region; other site 699246004811 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 699246004812 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 699246004813 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 699246004814 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 699246004815 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 699246004816 AAA domain; Region: AAA_14; pfam13173 699246004817 Domain of unknown function (DUF4417); Region: DUF4417; pfam14386 699246004818 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 699246004819 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 699246004820 non-specific DNA binding site [nucleotide binding]; other site 699246004821 salt bridge; other site 699246004822 sequence-specific DNA binding site [nucleotide binding]; other site 699246004823 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 699246004824 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 699246004825 non-specific DNA binding site [nucleotide binding]; other site 699246004826 salt bridge; other site 699246004827 sequence-specific DNA binding site [nucleotide binding]; other site 699246004828 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 699246004829 non-specific DNA binding site [nucleotide binding]; other site 699246004830 salt bridge; other site 699246004831 sequence-specific DNA binding site [nucleotide binding]; other site 699246004832 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 699246004833 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 699246004834 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 699246004835 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246004836 Walker A/P-loop; other site 699246004837 ATP binding site [chemical binding]; other site 699246004838 Q-loop/lid; other site 699246004839 ABC transporter signature motif; other site 699246004840 Walker B; other site 699246004841 D-loop; other site 699246004842 H-loop/switch region; other site 699246004843 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 699246004844 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 699246004845 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246004846 Walker A/P-loop; other site 699246004847 ATP binding site [chemical binding]; other site 699246004848 Q-loop/lid; other site 699246004849 ABC transporter signature motif; other site 699246004850 Walker B; other site 699246004851 D-loop; other site 699246004852 H-loop/switch region; other site 699246004853 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 699246004854 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 699246004855 HsdM N-terminal domain; Region: HsdM_N; pfam12161 699246004856 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 699246004857 AAA domain; Region: AAA_14; pfam13173 699246004858 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 699246004859 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 699246004860 Walker A motif; other site 699246004861 ATP binding site [chemical binding]; other site 699246004862 Walker B motif; other site 699246004863 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 699246004864 AAA domain; Region: AAA_12; pfam13087 699246004865 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 699246004866 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 699246004867 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 699246004868 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 699246004869 Walker A/P-loop; other site 699246004870 ATP binding site [chemical binding]; other site 699246004871 Q-loop/lid; other site 699246004872 ABC transporter signature motif; other site 699246004873 Walker B; other site 699246004874 D-loop; other site 699246004875 H-loop/switch region; other site 699246004876 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 699246004877 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246004878 Walker A/P-loop; other site 699246004879 ATP binding site [chemical binding]; other site 699246004880 Q-loop/lid; other site 699246004881 ABC transporter signature motif; other site 699246004882 Walker B; other site 699246004883 D-loop; other site 699246004884 H-loop/switch region; other site 699246004885 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 699246004886 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 699246004887 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246004888 Walker A/P-loop; other site 699246004889 ATP binding site [chemical binding]; other site 699246004890 Q-loop/lid; other site 699246004891 ABC transporter signature motif; other site 699246004892 Walker B; other site 699246004893 D-loop; other site 699246004894 H-loop/switch region; other site 699246004895 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 699246004896 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 699246004897 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 699246004898 Walker A/P-loop; other site 699246004899 ATP binding site [chemical binding]; other site 699246004900 Q-loop/lid; other site 699246004901 ABC transporter signature motif; other site 699246004902 Walker B; other site 699246004903 D-loop; other site 699246004904 H-loop/switch region; other site 699246004905 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 699246004906 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 699246004907 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 699246004908 non-specific DNA binding site [nucleotide binding]; other site 699246004909 salt bridge; other site 699246004910 sequence-specific DNA binding site [nucleotide binding]; other site 699246004911 RelB antitoxin; Region: RelB; cl01171 699246004912 MULE transposase domain; Region: MULE; pfam10551 699246004913 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 699246004914 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 699246004915 Walker A/P-loop; other site 699246004916 ATP binding site [chemical binding]; other site 699246004917 Q-loop/lid; other site 699246004918 ABC transporter signature motif; other site 699246004919 Walker B; other site 699246004920 D-loop; other site 699246004921 H-loop/switch region; other site 699246004922 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 699246004923 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 699246004924 S-adenosylmethionine binding site [chemical binding]; other site 699246004925 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 699246004926 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 699246004927 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 699246004928 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 699246004929 catalytic core [active] 699246004930 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 699246004931 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 699246004932 Fic family protein [Function unknown]; Region: COG3177 699246004933 Fic/DOC family; Region: Fic; pfam02661 699246004934 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 699246004935 Coenzyme A binding pocket [chemical binding]; other site 699246004936 RelB antitoxin; Region: RelB; cl01171 699246004937 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 699246004938 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 699246004939 ABC transporter; Region: ABC_tran_2; pfam12848 699246004940 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 699246004941 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 699246004942 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 699246004943 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 699246004944 Divergent AAA domain; Region: AAA_4; pfam04326 699246004945 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 699246004946 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 699246004947 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 699246004948 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 699246004949 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 699246004950 S-adenosylmethionine binding site [chemical binding]; other site 699246004951 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 699246004952 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 699246004953 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 699246004954 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 699246004955 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 699246004956 TrkA-N domain; Region: TrkA_N; pfam02254 699246004957 TrkA-C domain; Region: TrkA_C; pfam02080 699246004958 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 699246004959 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 699246004960 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 699246004961 metal-binding site [ion binding] 699246004962 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 699246004963 Soluble P-type ATPase [General function prediction only]; Region: COG4087 699246004964 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 699246004965 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 699246004966 HflX GTPase family; Region: HflX; cd01878 699246004967 G1 box; other site 699246004968 GTP/Mg2+ binding site [chemical binding]; other site 699246004969 Switch I region; other site 699246004970 G2 box; other site 699246004971 G3 box; other site 699246004972 Switch II region; other site 699246004973 G4 box; other site 699246004974 G5 box; other site 699246004975 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 699246004976 putative substrate binding pocket [chemical binding]; other site 699246004977 AC domain interface; other site 699246004978 catalytic triad [active] 699246004979 AB domain interface; other site 699246004980 interchain disulfide; other site 699246004981 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 699246004982 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 699246004983 Zn2+ binding site [ion binding]; other site 699246004984 Mg2+ binding site [ion binding]; other site 699246004985 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 699246004986 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 699246004987 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 699246004988 dimer interface [polypeptide binding]; other site 699246004989 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 699246004990 putative radical transfer pathway; other site 699246004991 diiron center [ion binding]; other site 699246004992 tyrosyl radical; other site 699246004993 ribonucleotide-diphosphate reductase subunit alpha; Provisional; Region: PRK12364 699246004994 ATP cone domain; Region: ATP-cone; pfam03477 699246004995 Class I ribonucleotide reductase; Region: RNR_I; cd01679 699246004996 active site 699246004997 dimer interface [polypeptide binding]; other site 699246004998 catalytic residues [active] 699246004999 effector binding site; other site 699246005000 R2 peptide binding site; other site 699246005001 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 699246005002 oligoendopeptidase F; Region: pepF; TIGR00181 699246005003 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 699246005004 active site 699246005005 Zn binding site [ion binding]; other site